[SCM] massXpert mass spectrometry suite: debian packaging branch, debian, created. a04aeff9a3ba7cf7aba0b7ce15375718ef1270f7
Lionel Elie Mamane
lionel at mamane.lu
Sat Apr 4 10:06:34 UTC 2009
The branch, debian has been created
at a04aeff9a3ba7cf7aba0b7ce15375718ef1270f7 (commit)
- Shortlog ------------------------------------------------------------
commit a04aeff9a3ba7cf7aba0b7ce15375718ef1270f7
Author: Lionel Elie Mamane <lionel at mamane.lu>
Date: Thu Apr 2 18:31:17 2009 +0200
typo in message
commit 96b9b7eb2953239d241d5bd591f87a1c3724daa0
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 2 13:26:41 2009 +0200
Removed old GNU GPL v2 tex file.
commit 1d086845c30e223a116efca3bb659cb36af11cfe
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 2 12:15:44 2009 +0200
Added new 'lint' test for *-bkp* files in the devel tree.
commit deb548c56ba7ac599fc672b7515c79c1b1e0c60a
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 2 12:15:04 2009 +0200
Added newline to end of file.
commit a3898be6930aebd4a3bb6dd2339f6f576da60d91
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 2 11:30:54 2009 +0200
Fixed typo.
commit a9667c6509a76d87b644088de61fd9343682d67e
Merge: 9f4440b6876968a30c9405e363d20fcabecacac0 62d410c697a2325445f649b11f43bc1fb5c83732
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 2 10:21:22 2009 +0200
Merge branch 'master' of ssh://rusconi@git.tuxfamily.org/gitroot/massxpert/massxpert
commit 9f4440b6876968a30c9405e363d20fcabecacac0
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 2 08:58:19 2009 +0200
.PHONY targets are now individually specified (so as not to forget them when targets change).
commit 62d410c697a2325445f649b11f43bc1fb5c83732
Author: Lionel Elie Mamane <lionel at mamane.lu>
Date: Thu Apr 2 07:33:59 2009 +0200
debian/rules: don't ignore return status of rm -f
commit b5bc522897ee574a7f4ab61d45d5bb79b04c4910
Author: Lionel Elie Mamane <lionel at mamane.lu>
Date: Thu Apr 2 07:32:01 2009 +0200
debian/rules: delete tmp-{arch,indep} dirs on clean
commit 1d4b11fe6f715e7d570161201e0a2f60ca0bc121
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 2 00:58:05 2009 +0200
Fixed discrepancy between .tar.gz and .orig.tar.gz.
commit 412891975d46144f631bdc6831eb3d4b900c5918
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 2 00:32:31 2009 +0200
Separating the install directories in debian/tmp-indep and debian/tmp-arch in the debian/rules file + all other required debian/* files.
commit fbaceec7f777c5b1f1f5cda41d9f09159ad993d1
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 2 00:31:26 2009 +0200
Cosmetic change in the platform conditionals for dealing with masslib.
commit 59cabac0ec4b67e605f2a3bd3e30ebe4ca68d7cd
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Apr 1 21:26:56 2009 +0200
Final fixes for the platform-dependent linking of masslib to the plugins...
commit 4097ce87d3d681024d7d7c1eddf449bd5c94ac0c
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Apr 1 21:13:42 2009 +0200
Worked with Lionel about the flags to the ld linker (either BSD's for MOSX or GNU's for MinGW32 and UNICES) for libmasslib.a handling.
commit 118330e94f3b38f682645ba3849b0b7dfe08ddcc
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Apr 1 21:10:04 2009 +0200
Modified preparation script for MOSX binaries due to changing SHARE to MODULE in gui/CMakeLists.txt for the plugins.
commit 8844ba699380e3e7ce27e65c76857c3907cf4c5d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Apr 1 21:08:41 2009 +0200
Added thanks to Lionel Mamane in the Front Matter.
commit 966580d17107d8af5355a5afcbce52169dfa3c05
Author: Lionel Elie Mamane <lionel at mamane.lu>
Date: Wed Apr 1 12:02:32 2009 +0200
Hanlde lintian wishlist/info tags, too
commit 48e530dc609fbab9f3ceaa84ee948e8f25f2b5d2
Author: Lionel Elie Mamane <lionel at mamane.lu>
Date: Wed Apr 1 11:58:34 2009 +0200
Oups, it seems relative path does not work
commit 5c995201b94a76c6c3d47572e10123d107eefd9c
Author: Lionel Elie Mamane <lionel at mamane.lu>
Date: Wed Apr 1 11:33:13 2009 +0200
- Declare plugins to be such for CMake (it calls it modules)
- Instruct CMake not to put a soname in plugins (modules)
commit 6bd4b8180a5aaba6957d561b824106a135d478d4
Author: Lionel Elie Mamane <lionel at mamane.lu>
Date: Wed Apr 1 11:28:43 2009 +0200
Include the whole of libmasslib.a in executable,
so that all symbols are available for plugins.
Not done on Microsoft Windows for now; non-win32 is assumed to be GNU
toolchain...
commit 94e058faefd8dccd23ae6058f6a800bc05326d8b
Author: Lionel Elie Mamane <lionel at mamane.lu>
Date: Wed Apr 1 11:09:35 2009 +0200
debian/rules: arch packages have no massxpert.pdf
commit 14ed1dd6ab09cc1c9eda95ca27915cc056a3e7fb
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Mar 31 23:45:30 2009 +0200
All set for version 2.0.0. Should be OK to produce Debian packages.
commit 8e4680cc16e338fa1733d61f9b28644c5bbbb89e
Author: Lionel Elie Mamane <lionel at mamane.lu>
Date: Tue Mar 31 19:52:57 2009 +0200
debian: fix discrepency between control and changelog about Standards Version
commit 319247d1631fab8084edeffe959f1bbe42a986c6
Author: Lionel Elie Mamane <lionel at mamane.lu>
Date: Tue Mar 31 19:47:08 2009 +0200
debian/rules: update PHONY declaration; remove unused install target
commit 9d6a10a55aa479138bdb27d534cdc869c47c6a6f
Author: Lionel Elie Mamane <lionel at mamane.lu>
Date: Tue Mar 31 19:44:48 2009 +0200
debian/rules: remove instructions left by dh_make
commit c8f4219ad3629f4c99af56c4123139561e6e96e6
Author: Lionel Elie Mamane <lionel at mamane.lu>
Date: Tue Mar 31 19:43:46 2009 +0200
debian/rules: dh_clean takes care of debian/tmp
commit 893cae9c4f6023439b296ec58f30ddbce6c40210
Author: Lionel Elie Mamane <lionel at mamane.lu>
Date: Tue Mar 31 19:42:45 2009 +0200
debian/rules: call dh_clean only after having tested rootness; also remove uncessary comment
commit 60f5a80ade700c301e661fd585308e1fa2722fbd
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Mar 31 18:26:34 2009 +0200
Modified plugins' CMakeLists.txt files so that MassLib class' symbols are linked-in in the shared libs.
commit d5d07de7d8b0af267ca119f2101a9996d99f6699
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Mar 31 00:44:43 2009 +0200
Made dh_installdirs perform separate actioons between indep and arch.
commit 5b2d2414037b8a4088be9ceb93781af03e414197
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Mar 30 23:12:26 2009 +0200
Support building into two separate directories for arch and indep targets in debian/rules.
commit e3a338622e0282c79589b504e3ac5f798070e22e
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Mar 29 16:37:50 2009 +0200
Fixed problem with cross-contamination of arch and indep targets.
commit 78e938af6d532f17337eba79df0e77b4a86f16fa
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 28 23:19:28 2009 +0100
Updated log.
commit 5ec7459850e0cc133beb57c688799848c908f185
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 28 23:11:33 2009 +0100
Fixed XpertDef bug due to not checking if a modification is used by a cross-linker prior to removing it from the definition. Crashes. Reported by Ron Bakus, UCSD.
commit 79453239ff08122ee93209a043fad4102d5c9571
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 28 19:49:51 2009 +0100
Bump to 1.9.9.
commit 514f17f6eba674ef440e758fda0816d60a1fb7af
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 28 19:49:21 2009 +0100
Fixed problem with filename.
commit f9fec6cf6c0339621e8999fa665dbf8b1e4e000a
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 28 17:01:06 2009 +0100
Reworked the cmake stuff so as to separate the binary program building and the usermanual/data workflows. This was required for the debian/rules makefile to be according Debian technical standards.
commit 004c14510ac53f84d07b6e4fa66d40c1f2d17fd2
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 28 13:23:38 2009 +0100
Cut the src_root_dir CMakeLists.txt into three subsection : install_program, install_usermanual, install_data. Tested OK.
commit b43427a3e00d65ee7e3cc7ecabb28396f15621ac
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Mar 27 23:42:02 2009 +0100
Updated TODO.
commit 92d4d228eb67c04b6808d93718a9cc3ed6880224
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Mar 27 23:30:18 2009 +0100
debian/rules version with improved understanding of the procedure. However, make install triggers compilation of both the binary code and the arch-indep stuff. Bad. Still need work.
commit 930c5ff80acbeeadf06119f9d16444e5cdded299
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Mar 27 23:28:53 2009 +0100
Exploring other CMake install procedures. But still using the old one.
commit e57ee2a1dbf67b099867e2ad6a372ffac52d7c77
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Mar 27 23:28:20 2009 +0100
Fix with a word lost in the code...
commit b66d68b40158c9de03914ec47ed73f38a8d11c3d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Mar 27 23:28:01 2009 +0100
Fix with new simpler location of the user manual.
commit 38664714e73e6041f70c95a3e45c1759a27d535e
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Mar 27 23:27:17 2009 +0100
Fixed problem with lost spaces in the DTD for polymer chemistry definition, which would make loading that polymer chemistry definition fail. Verification inspired by the bug report of Ron Bakus (ucsb at domain edu) about the same problem in the polymer chemistry definition file writing function.
commit ce684399ef4aafe119f0b7f6943f8a38cbe4d670
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Mar 27 23:23:03 2009 +0100
Fixed problem with lost spaces in the DTD for polymer chemistry definition, which would make loading that polymer chemistry definition fail. Thanks to Ron Bakus (ucsb at domain edu) for the report.
commit 1a6bf08006d25a516d38430a43315d941ddacc9b
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Mar 26 13:20:56 2009 +0100
Nearing 1.9.8, even if Debian package not finalized.
commit f2c46cdac36e140c9678e12250b3c8392d886496
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Mar 24 18:12:23 2009 +0100
Last modifications for Debian packaging, along with exclusion of two plugins from the build.
commit cf925d1fc47241150c40ee878be1585785d1088a
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Mar 22 11:43:07 2009 +0100
Still improving Debian packaging.
commit 55f6d1e0e611b375ef30f40b0d0e3c257cedddc0
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Mar 20 23:04:29 2009 +0100
Still improving the Debian packaging.
commit e782c7cd128b3b170f62ed15455434186a71f10f
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Mar 20 16:30:08 2009 +0100
New modifs according to revisions by Lionel Mamane.
commit 4a729f4efb9df5671416f64c5f679b710ff4bc71
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Mar 18 18:05:21 2009 +0100
Removed include dependency on QtNetwork
commit 69f71b7fb0dcc567f33dd6c73cd8a3469e2063b8
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Mar 18 17:49:43 2009 +0100
Cosmetic changes.
commit dea38baa15c0fc02e5826d749045c9b98ba0526d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Mar 18 17:48:59 2009 +0100
Removed linkage dependency on QtNetwork, as discovered by Debian's dh_shlibdeps.
commit 171a0039a502afc3d8a56a3e212272bc2a6575a9
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Mar 18 16:11:37 2009 +0100
Work improving the Debian packaging, thanks to invaluable help from Lionel Mamane.
commit 97bfba4913911c168f207f656b11a85d944e0ea9
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Mar 18 15:35:10 2009 +0100
Removed inclusion of QHttp.
commit daa784ce509ec546a15cf3c12fab5d5ef9d19735
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Mar 18 13:57:18 2009 +0100
Removed linkage dependency on QtNetwork, as discovered by Debian's dh_shlibdeps.
commit c4b53b8913c7e08812e889a9ff2a452f2eeab9fa
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 14 20:22:58 2009 +0100
Fixed sorting of fragmentation oligomers using their name as criterion (that is a string in the form <fragspecname>#<numb>#(<fragrulename>)#z=<charge>.
commit ad2c36e8e610e2a4a21b719216733024f4ba2545
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 14 14:14:54 2009 +0100
Added -v switch rsync command.
commit 11fa3ae2f1f719ae83790b8663f0cefbeb08413d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Mar 13 18:28:28 2009 +0100
Last modifs for release 1.9.5.
commit 3615cda0d0b9baaff7b2fe292ae555c580efb658
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Mar 1 16:56:29 2009 +0100
Fix with the french translation.
commit 2ee9244af17b03fb5809ffa43614be627d1a1d31
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Mar 1 16:56:13 2009 +0100
Improved user graphics interface experience.
commit a50304567c2df04a6158d3f104dd0e409f9878b1
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Mar 1 16:55:49 2009 +0100
Fixed small bug.
commit 69404e386e523253d57389dd6f04e322f6155744
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Mar 1 14:54:02 2009 +0100
Pure cosmetic stuff, standardized on having funcname() calls and not funcname () calls.
commit df1d83f1be5ed9376b94be8d730c15ad9ccc53f1
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Feb 28 21:25:27 2009 +0100
Updated todo stuff.
commit 73d23696877ee6f65050ec2253def8220ea49896
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Feb 28 21:25:13 2009 +0100
Removed leftover FIXME stuff.
commit bf35b1bea62b7cbcd2277c5edb35169393410003
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Feb 28 19:11:20 2009 +0100
Improved the user experience with setting polymer modifications.
commit 56845bb06adebabf60116c08e5aafdb4c33dde53
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Feb 28 15:10:37 2009 +0100
Fixed problem with software configuration (config.h) so that translation files are found.
commit 5bf8602792acfb45f918ab239689ccddd141e67f
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Feb 28 12:32:14 2009 +0100
Updated the french translation.
commit e2a725a77c6e7bfb157bcb1e4f96fdfa97e07a0c
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Feb 28 12:28:10 2009 +0100
Fix with a GUI string.
commit 529b630d898bba6fac2844312049dea997ba0c54
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Feb 27 23:08:09 2009 +0100
Removed debuggin material.
commit e00dfffbda1fbdf09d7829bc3133883521b4189e
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Feb 27 23:04:39 2009 +0100
Remove debugging material.
commit 5187069ae9384a21e0c0f5960149b8b0384b2e33
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Feb 27 23:03:46 2009 +0100
Fixed sorting of the cleavage oligomers on the base of the name 0#2#z=3.
commit 0037a1608772cf9754a4e278088448bfc5dd9a3a
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Feb 22 17:52:33 2009 +0100
Fixes in the man pages.
commit d4f72d160ca0e01033a366b402ab6664299be264
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Feb 22 15:07:39 2009 +0100
Fixed clean target with respect to the user manual (fixes one hysteresis problem).
commit 733edaa0fab427b5334cd078ea6eec8235a6f729
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Feb 22 15:06:47 2009 +0100
Updated to add Lionel as uploader along with new date/time stamp.
commit e1066909cd46a508c3d087d6efa7a1389437b245
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Feb 21 23:57:08 2009 +0100
Fixes for a Debian packaging with no lintian errors nor warnings.
commit 2ba427118d8b158cc89486a5eb571baa875cecae
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Feb 21 22:24:29 2009 +0100
Small fix not to generated gzipped manual.
commit 448aa7d0014621c512d110c3b7f5bea14196572a
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Feb 21 21:21:05 2009 +0100
Debian packaging - making 3 packages: massxpert-bin; massxpert-data; massxpert-doc.
commit ec527f6e39839692befd3a8ba44670ca46ee226f
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Feb 21 14:13:12 2009 +0100
Improved script to remove all stuff non-Debian from the upstream source tree.
commit 8e8ff32b582d6aff4bb9a0673693127b7c39779b
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Feb 21 14:12:37 2009 +0100
Updated.
commit 63b2bdf73a33fe013d92a72f4d0de11abd9eb1b6
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Feb 20 22:46:20 2009 +0100
Bump to 1.9.5.
commit 3af36d4cfef280cafd0c9e2c2acb3bf0aa027449
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Feb 20 22:45:27 2009 +0100
Updates in the manual and changes of exec bit on graphics files.
commit 9f65747f8599b62ed2b7ba48eb0b9903999f5723
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Feb 20 21:54:28 2009 +0100
Removed kdevelop-specific files
commit 125dbb480eb8e4b56bfcb82414acfc551fd27b8c
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Feb 17 15:06:08 2009 +0100
Updates.
commit 201aa45c0ed7eef38e05a9d39355e5fe289f85cb
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Feb 17 15:05:32 2009 +0100
Fixes.
commit 4e72887d21f5b07ea4b37fbe457cb6f22eb3f562
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Feb 17 12:33:08 2009 +0100
Put a comma between two packages in the Build-Depends-Indep field value.
commit 36e15505e63eb0e45eab31bb7b34ba65773e2866
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Feb 11 23:20:53 2009 +0100
Fixed problem with Build-depends in debian/control. Package now builds correctly in pbuilder/unstable.
commit da1efb793e3a7b7e27e18b86cd48ebf6718fc3e7
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Feb 11 23:20:16 2009 +0100
Fixed problem with output of curve data after computation of the isotopic pattern.
commit 2714721131c500fcf64f9c56b0e37495309037bc
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Feb 11 21:15:27 2009 +0100
Removed usermanual/massxpert.idx and changed .gitignore
commit f9c88708e00b065c80750de66e7ef385e52cfe61
Author: rusconi <rusconi at filo.(none)>
Date: Tue Feb 10 23:07:00 2009 +0100
Fixed problem with the clean target in debian/rules.
commit 0d176007d50bef0be16c3bf6a046530b778a7ac6
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Feb 10 19:15:07 2009 +0100
Fixed bug that would crash the program when trying to unmodify a monomer that is no more existent in the sequence.
commit 32cffbe85103bb452c769beeb043b73ed1693b4d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Feb 8 22:12:37 2009 +0100
Improvements to the maintainer scripts.
commit eacda6ba518469661128f993c6615fff6863ea36
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Feb 8 20:02:22 2009 +0100
Small updates.
commit d25a96d9a1f87370dd90f2879a836c71f4c9d3e1
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Feb 8 20:02:02 2009 +0100
Removed the bits related to making the HTML version of the user manual.
commit e901642c19b98d476001fdb2636220fd95c0e1ae
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Feb 8 20:01:30 2009 +0100
Changed to executable mode.
commit aa2eff3a1eb628332a0db5c58d0c821b31ca4a29
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Feb 8 19:59:34 2009 +0100
Started Debian packaging again.
commit 2c716368005323e2d73d8d77e7273d928ef05353
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Feb 8 18:07:56 2009 +0100
Bumped to 1.9.1
commit 3cd0b057577e2b6f3328f6ee707fb197f16e5d2d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Feb 8 18:07:40 2009 +0100
Added 2008, 2009 to years of Copyright
commit 731362510725ae57711c8aa95ade08ce36b56462
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Feb 8 10:35:04 2009 +0100
Added user-configurability to the number of decimal places to use when displaying data about pH/pKa, atoms, oligomers, polymers.
commit b54a0c1865662be81f3dccdd8828e424aeef2b9d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 5 11:58:14 2009 +0100
Updated the user manual.
commit aa8e625b111d3ff3587c5b32116e231ff54d79f0
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 5 11:56:55 2009 +0100
Bumped to 1.9.0.
commit 3c9c86b49531cb3cb17cdcdcd73cd04cc42e1b9d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 5 11:56:25 2009 +0100
Fixed small glitch.
commit 91ff4a12a23c9cffe1ea6b5d56afacd3abf53790
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 5 11:55:46 2009 +0100
Added trypsin+endoAspN cleavage specification.
commit e909ebde2f37f4c5532837f48f7d01ab356055c5
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 5 11:52:38 2009 +0100
Removed debugging messages.
commit 54d77ef9b3d407d8ca9ecdb230b7db7c10c48399
Merge: aac4a27db5cb3ecbccb8a67334abc09175cf9089 fc7b013dc5faf9f994bce9c20933b4fe80309676
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Feb 4 23:06:45 2009 +0100
Merge branch 'master' of ssh://rusconi@git.tuxfamily.org/gitroot/massxpert/massxpert
commit aac4a27db5cb3ecbccb8a67334abc09175cf9089
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Feb 4 23:02:16 2009 +0100
Fixed bug with special cleavage situations, like using /D
commit 3bca3e4e66abd7287b0501b6e493ce869c7149f6
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Feb 2 23:26:13 2009 +0100
Continuing work on the decimal places...
commit bb6774aff725de37c28f3836900302a436ce828c
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Feb 2 22:51:38 2009 +0100
Continuing work on the decimal places...
commit b2854d3b65aabf93626eb469f429b98e2b04217b
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Feb 2 22:36:55 2009 +0100
Fixed glitches and improved on the settings about the number of decimals that should be used to display data about atoms/oligomers/polymers
commit e17ef1122ec2ffc0df5b4ffe582540daca4eada8
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Feb 2 17:54:31 2009 +0100
Added #define's for the number of decimal places used for mass reports in function of the polymer/oligomer/atom chemical entity involved.
commit 7805ce066c755911eac78b8e95e6fd8ded8095f7
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Feb 2 15:13:45 2009 +0100
Cosmetic change.
commit c943116a8a507542462e1a7337c02fa6f4bf776a
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jan 22 19:38:48 2009 +0100
Added possibility to edit the sequence by clicking the code items in the list of available monomers in the sequence editor window.
commit c77a88a6b5ee478efd0042112b50a5d3713e542b
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jan 22 19:38:08 2009 +0100
Removed use of the QT_NETWORK lib as the internet-based monitoring of program's usage has been removed.
commit fc7b013dc5faf9f994bce9c20933b4fe80309676
Author: kde-devel <kde-devel at rddm503pfr.mnhn.fr>
Date: Wed Jan 21 21:57:54 2009 +0100
Added possibility to edit a sequence by clicking onto the items of the monomer list in the sequence editor window's right pane. Useful when monomer codes are not yet known. Also removed the multi-selection flag from the list widget.
commit 8199bbdbae8b100ac3b3bdf1c62a7cbf2ebb6c2f
Author: kde-devel <kde-devel at rddm503pfr.mnhn.fr>
Date: Wed Jan 21 21:56:26 2009 +0100
Removed all stuff about monitoring program use via the internet
commit 7acd2322e792202e075d256fefe854c7573b3572
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Dec 18 12:32:11 2008 +0100
As of version 1.8.1
commit 6b6c7fb9c9d1fe710d9e416b19ca68b805c2c778
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Dec 17 20:38:58 2008 +0100
Bumping to version 1.8.1
commit eb25ded4e1435ea675a23ff1c70fb77f010e8920
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Dec 17 20:35:58 2008 +0100
Making use of new setter for both startIonizeLevel and endIonizeLevel in CleaveOptions class.
commit cd3fb398a6017629099e184cee34955ec2b82a1f
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Dec 17 20:35:10 2008 +0100
Added a setter for both startIonizeLevel and endIonizeLevel
commit 9a4714dd11cbd658a30ae0921161167886d4c855
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Dec 17 19:54:24 2008 +0100
Fixed bug whereby performing a cleavage after having had no oligomers in the treeview would crash the program: the program would attempt to remove rows from the treeview, while there we no one.
commit c70cec0814ebc3a6068b744ac159342690317583
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Dec 17 19:37:34 2008 +0100
Bumped to version 1.8.0
commit 5aa7e24832397db93d55393e6064e184d6262849
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Dec 11 21:03:22 2008 +0100
Fixed nasty regression bug that would crash the program upon pasting a sequence that would contain invalid monomer codes.
commit 22b318bd14bfaa90ccd2c47089be74c3672fe932
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Dec 11 21:02:40 2008 +0100
Added horse myoglobin sequence as an example
commit 2bdd54cea27841029cd805d4e75da78c5b03fc9d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Dec 11 21:02:10 2008 +0100
Fixed the HTML-related sequel stuff.
commit dba443f93ead203f64001a79040effbd9881f837
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Dec 11 20:57:54 2008 +0100
Last modifications prior to release of version 1.7.9
commit f52443e56f48a74707d3df89620419a9612964b1
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Dec 9 18:15:31 2008 +0100
Fixed bug which would crash the program upon trying to select an empty sequence.
commit 9d5e37d828996c1cedbcd7cd56452abba4007ec6
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Dec 9 18:13:10 2008 +0100
Revert "Fixed bug which would crash the program upon trying to select an empty sequence."
This reverts commit e061cf5ee67772a278dc78351852608787887eff.
commit e061cf5ee67772a278dc78351852608787887eff
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Dec 9 18:12:06 2008 +0100
Fixed bug which would crash the program upon trying to select an empty sequence.
commit fc1830a4330e4bb46dd3b8ddc5a6e923aad4c209
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Dec 9 18:06:55 2008 +0100
Fixed bug which would crash the program upon selection of a sequence starting after its last monomer
commit 51c2167e4da2d8219037d94b65db43034db13185
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Dec 6 22:14:14 2008 +0100
Added feature to enable accounting left/right end modif of polymer for selected sequences even when the selected region does not encompass the left/right end(s) of the polymer sequence. See telokin paper by Rusconi et al. 1998 in Biochemistry for details.
commit 347d5422c680b691a1f670aa9826bf3ecee6b5fa
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Dec 5 21:28:56 2008 +0100
Improved saccharide polymer chemistry definition
commit 4b3e1b414f00503ceeca76b8cf620caf8cf6f298
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Dec 5 21:28:35 2008 +0100
Added protein example sequence
commit e49f586a7e3ebca7cd79b507423b61efa5efdaff
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Sep 11 16:01:02 2008 +0200
Small fixes
commit 98558ba2721f98997b184fdf752a535720d0b3e2
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Sep 11 13:50:37 2008 +0200
Removed support for the user manual in HTML format
commit 3e348180a4100de5a2dd385bb0e582fa4a725af8
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Sep 11 13:49:35 2008 +0200
Indexed user manual
commit 94d1ba4b7534999f4e07804a54ad331b6d3f81cc
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Sep 11 13:49:07 2008 +0200
Indexed user manual
commit 3d120056645936d57e16932cb7abe0a5b62a70cc
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Aug 5 13:38:43 2008 +0200
Removed usermanual html format preparation from script.
commit f0a2b1e7ccab189c05b87a5cd2108ad68c33cc80
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Aug 5 13:33:20 2008 +0200
Removed the usermanual/html and userman/figures directories from the shipping material.
commit 9a098ff6870d5698d58a223535cbd8bfea79d893
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Aug 5 13:26:56 2008 +0200
Updated the user manual.
commit ed22a81f6ef9d69c0385e0c68604f936c3c08715
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Aug 4 15:42:25 2008 +0200
Fixed bug with monomer cross-link dialog window not storing its settings correctly.
commit 959e58f9a9b4d140ca6823a0b8ca954da0ddaf98
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Aug 4 15:40:02 2008 +0200
Made the items in the monomer cross-link dialog window activatable, such that the monomer described by the activated cross-linked monomer list's item
is displayed in the sequence editor.
commit 5cb621a0088a97a9e9b3b713f0ca1e316664f5ef
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Aug 4 14:33:50 2008 +0200
Improved the sequence editor window closing cascade when closing the application and
made items in the monomer cross-link dialog window activatable, such that the monomer engaged in the activate cross-link item
are displayed in the sequence editor.
commit bdd24dc333f6637cc816fb5ef3c94a5889967379
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Aug 4 12:52:37 2008 +0200
Update of TODO
commit abaafb3f3a1c91c3f9e674a87d0f7c293d110978
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Aug 2 01:56:16 2008 +0200
Updates to doc.
commit fb583d181405136c6fd19c69d015870d6c32e3fa
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Aug 1 22:59:35 2008 +0200
Bumped version to 1.7.9.
commit 2ae810e76b403fb399d33a9c8b0387956c91cebb
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Aug 1 21:34:55 2008 +0200
Fixed regression with uncross-linking.
commit 494d037554933ec3e70d62bc456dd709e40c8569
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 31 21:22:05 2008 +0200
Bunch of fixes for issues brought about by the switch to g++ (Debian 4.3.1-2) 4.3.1.
commit 916ca3e7d1483589ff2d19a5901175f82ea3cf7e
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 31 21:21:46 2008 +0200
Bunch of fixes for issues brought about by the switch to g++ (Debian 4.3.1-2) 4.3.1.
commit 9284323051523006910cc6d434706559bfb40262
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 31 00:03:12 2008 +0200
Added new user manual figure.
commit b9cf3fbe2e14b3150e8760ad309b5855e0d4c541
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 31 00:01:56 2008 +0200
New image of the mzLab output dialog window.
commit 2271e92b0a922713148dcaa7f1889830d87a8dc8
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 31 00:01:31 2008 +0200
Fixed float display according to locale.
commit 6e6c5ac73c1c8a133be893abcd528fb6365d61c1
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jul 30 23:25:17 2008 +0200
Fixed bug that was introduced recently about the calculation of the
right-end fragment boundaries.
commit 8cd21d13791563ede64e7de950104452f28282c6
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jul 30 23:04:45 2008 +0200
Updated partly the documentation on the mzLab. Still some work to do.
commit 660ff70c73833ce009322463edea2e1d88792c74
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jul 30 21:43:25 2008 +0200
Small GUI fix.
commit 87621d9b0dfe34c23c0d576d9ff30dda0bc14972
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jul 30 21:42:54 2008 +0200
Fixed various Q_ASSERT() calls.
commit eae80519331cfdbb099817f0c079c44563d4377c
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jul 30 21:38:33 2008 +0200
Fixed bug related to putting a critical function call in a Q_ASSERT() statement.
commit b33cb539adc38010f0f63978a16cf5a72b214287
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jul 30 16:54:33 2008 +0200
Make sure the oligomer's region is displayed in the
polymer sequence editor window (if still present) when an input m/z list oligomer is activated.
commit 4c937994108403ba8598620e65c8cffddf3bbab6
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jul 30 12:32:22 2008 +0200
Added QT_MIN_VERSION to CMakeLists.txt so that it is ensured that the minimal version is 4.4.0
commit bffe13acfc31701e06c48b48a13e09d2ac22318d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jul 25 18:34:53 2008 +0200
Finished the mzLabWnd gross work. Now test.
commit dda9ac2648b05d4358f29f915aeafbc489753dd3
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jul 25 15:25:07 2008 +0200
GUI fixes.
commit 117fc3d7440b506152bb9c09f0a82944c6d6fa01
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jul 25 15:03:21 2008 +0200
Generalized specialised handling of fragmentation oligomers to
single-list-based calculations. Still have to do that work for the list matching functions.
commit ec3452f7fbdfb0e29da2b56c546d7b632f26f1ab
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jul 25 15:01:58 2008 +0200
Removed debug strings.
commit ee94b0c91a960747a78bbd18cb6077e2c16fcc0f
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jul 25 15:00:07 2008 +0200
Improved the charge/ionization handling functions specific for FragmentOligomer.
commit 49211b2801f70c4dce34d190a84ace4b3e1883b7
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jul 25 14:23:20 2008 +0200
Fixed problem with initialization of fragmentation oligomer with sane ionization rule
along with level set to 0
commit 0f33337a1bed5c9d80a13b0a0fa5366bf9911bfe
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 24 21:38:29 2008 +0200
Improved very much the ionization/deionization
paradigm for the fragmentation oligomers, which are to be very distinctly treated compared to
their base class Oligomer
commit ea8fdf85a306ef62f8723f83a6a97e5b94d13770
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 24 15:51:35 2008 +0200
Fixed dropping fragmentation oligomers in the mzLab input dialog.
commit 7ddb5ed61301b45af67f7ce303a4d62c5025ffc0
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 24 00:03:34 2008 +0200
Heavy work into making the mzLab more stable. Still a long way to go, though.
commit a6124656d6dc659354323edc68bcb85e38670e1d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jul 23 23:43:17 2008 +0200
Make ionize return -1 if mp_polymer is 0 (error condition).
commit e48b73642670346494554ee90e8b96986cb4b5dc
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Jul 22 13:34:52 2008 +0200
Fix small GUI bug.
commit 93cec36460a272071b3fd0d6741216530a1b8a01
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Jul 22 13:32:40 2008 +0200
Fix a bug with ionization level ranges (crash in cleavage dialog window.
commit 354d91fd26e52b1ce26ac96f1dc13d3f6e09149c
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Jul 21 23:40:47 2008 +0200
Added ability to define the maximum number by which a single
monomer might be modified with one given modification.
commit 0106e157fb95a765c346659c3e83749053ce053b
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Jul 21 13:37:48 2008 +0200
Removed debugging messages.
commit 90814158f11632cd85d5584990b22ba86699828b
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jul 18 18:20:01 2008 +0200
Another set of switches from Polymer * to QPointer<Polymer>.
commit ba919b6eb4ef49b6a820b1fdabeda170d0166cc1
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jul 18 17:20:02 2008 +0200
Switched to guarded Polymer * for cross-links also.
commit 7e9f2b1dd5e5ad618c17430ae8afcbef9bea6e9e
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jul 18 17:03:22 2008 +0200
Removed the polymerDestroyedSignal emitted by the polymer
upon destruction, as now all the polymer pointers are handled with QPointer.
commit 6e8577ef899f84a1c8cab077ba5c176cc7835308
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jul 18 14:58:23 2008 +0200
Switched to a guarded pointer to Polymer in Oligomer
so as to be able to trace existence or not of the polymer for which the oligomer was created.
commit 487177ab6e2f778f21cbac3b1c5c96068489e512
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jul 18 12:09:33 2008 +0200
Implemented Oligomer as a class derived from Sequence
so that it is possible to store the sequence of the oligomer inside it.
commit 6af888c095f4922a668378849de40b0cf849f2fc
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 17 14:58:02 2008 +0200
Commit of partial implementation so as to be able to make a branch
to test deriving Oligomer from Sequence, so as to be able to store sequences of oligomers in the latters.
commit 7931c3d6d68cd24b5aaf72e9f5f98952112b5b5b
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 17 14:56:20 2008 +0200
GUI improvements.
commit 07555d4adb62c8e931ca6fc6de0485febb2d319b
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 17 14:54:46 2008 +0200
Improved constness handling for accessor function.
commit cb8f9c6491402cc8c8c462764599d82d8fbd65a1
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 17 14:53:34 2008 +0200
Added checksum-calculating function to Sequence.
commit aba0919e46d02699186db2432655db1a340211b1
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 17 14:23:21 2008 +0200
Added some modifications.
commit a8cb4fcbce01ef702a161c2b078944d20045e210
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jul 16 15:28:27 2008 +0200
Removed a whole bunch of debug strings.
commit 74a1940865a2970b4f209fac2a0b4595d47b4f73
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Jul 13 22:39:05 2008 +0200
First implementation of the list matching in the mzLab.
commit 66e6b76ff2fc356cdf63a4ee8fe76c4585f9c381
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Jul 8 16:59:54 2008 +0200
Update for figure reference changed in xpertedit.tex
commit 572b61c5f68d24104c18a4d1cd2ea3229c0d40b6
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Jul 8 14:38:25 2008 +0200
Better assertions
commit 1773d412447d06d8976de14bfe8f230d00df4f90
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Jul 8 14:38:02 2008 +0200
Bumped version number to 1.7.8
commit 269f957bd484bb3561f972a4a2008aa4ecc5bef1
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Jul 8 14:37:37 2008 +0200
Updated the user manual
commit 88574d68bf665c57af9421c3ecce135b7dd223cb
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Jul 7 20:59:31 2008 +0200
Fix of bug that lead to a crash upon construction of a new input dialog
commit 0f55a5b36ddd8502744d81ecacbc54cc12d808c6
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Jul 7 17:00:54 2008 +0200
Fixed bad tooltip in the toolbox
commit 19c1e833bbb91540502b13e6837aa07ef36d8e45
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Jul 7 16:42:43 2008 +0200
Removed debug strings.
commit c10d6e970bad0f2f8dff40e8def76a0441d9010a
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Jul 7 16:42:09 2008 +0200
Better error feedback
commit 422524e02e91b23c96ad11413fd731b538b20481
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Jul 7 16:41:29 2008 +0200
Updated TODO
commit 889b2ccdc9b251f7aa522bcbfb17e3dd3234f8c5
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Jul 7 14:01:42 2008 +0200
Small GUI improvement
commit 4b71ece45c666c8ecd83f9a6492c5e1a5647074c
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Jul 7 14:01:29 2008 +0200
Fixed slowness of the removal/addition of oligomers to the model
commit 162c3a76a2d9d048b3d236cee431274d882ede24
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Jul 7 10:53:01 2008 +0200
Simple member datum name change
commit 15c27f806db6ae547c8b3ee7d81fe2148955a8f8
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Jul 7 09:58:06 2008 +0200
Small GUI improvement
commit 5b682e677bde2b35d181fa14dbce54f0faf1908f
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Jul 6 23:11:22 2008 +0200
Improved the user experience with the multi-cleavages feature.
commit 801fae98d4f767ea6f0d585c33aa163e1629c590
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Jul 6 23:10:46 2008 +0200
Added member datum to store the cleavage agent's name
commit a7a718dd0b27a59373a59351c0aec43b4f5792f2
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Jul 6 16:20:29 2008 +0200
Better abortion feedback strings
commit ac8905b191b0c6232e49c14ac6499b1c34b6ddda
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Jul 6 16:19:22 2008 +0200
First implementation of multi-cleavages: it is now
possible to ask that oligomers generated with different enzymes or conditions be staked
onto the preexisting ones in the results oligomer treeview.
commit 4d733c55842de75f7d69cfde14bf370b84018249
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Jul 6 15:41:41 2008 +0200
Ensure the cursor is located right of the last region selection.
commit 4e2210fef9cf7bd0ad9bc677114fb28b52b5612a
Merge: e59830a7b073428b64403eb8f798e721d902df27 5a258ef9e84d28943a931d8bf56c71e92c8f7e94
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jul 4 15:01:13 2008 +0200
Merge branch 'selectionStuff' into newMasterNoDelete
commit 5a258ef9e84d28943a931d8bf56c71e92c8f7e94
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jul 4 14:55:48 2008 +0200
Modifs for version 1.7.7 in debian/changelog
commit f2546e86300a37c443a5b790b75227714bd70fb5
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jul 4 13:33:58 2008 +0200
Fixed glitch with plugins
commit 4d693aef9647ddbe1085de3f35c3dbfdd2fb1424
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 3 23:22:11 2008 +0200
Figure for new user manual material
commit 1ea7aca1cba275b1adda4196616809c2c451446f
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 3 23:21:31 2008 +0200
Updated TODO
commit 95b437462fcf02ee7ce2c2af8f65fe051c58a4a3
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 3 23:21:20 2008 +0200
Updated the user manual
commit 9119f36d3371eb7278524493d110a97c61434e5a
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 3 23:21:01 2008 +0200
Bumped to version 1.7.7
commit 435a8cca4a30b79fcf33e05de8b134bb579dd8d3
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 3 23:16:08 2008 +0200
Improved the GUI for the dialog window, related to the multi-region
selection feature
commit 0a378b26c5e30998050b176a50eef3af33e30034
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jul 3 23:15:34 2008 +0200
Removed debug strings
commit 173d331b2d7093775e15733e13fc99d90c965920
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jul 2 19:25:50 2008 +0200
Improved the visual of the monomer vignettes
commit dd9afa7a2cd0da44be6bb81497f661a8ec178933
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jul 2 19:25:36 2008 +0200
New version of the usermanual figures
commit 437773db5f45f9ca1fb996ef1128b4107ce6a3f7
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jul 2 19:25:04 2008 +0200
Improved the visual of the monomer vignettes
commit a15ecb6d81ab9c14d39d91b4eb78328e4257d2a7
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jul 2 19:23:36 2008 +0200
Improved error condition feedback
commit 6a1fe5611fc9ad8a0e26100c4b5db7c5f436ec0f
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jul 2 18:51:39 2008 +0200
Small fix with update of selection data.
commit 4cca5ec0f6c96157e07aebf5b4d7a1f5eb9fec92
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jul 2 18:51:06 2008 +0200
Improved the monomerModificationDlg
commit cca90b1e8b1694a65aceccf9bbdaeb88f243a468
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jul 2 13:25:46 2008 +0200
Fixed bug in which the unique selected region would not be
replace with the pasted sequence
commit ea3bdf16d1fefc7b41e1289b10f96cc6d338e1f4
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jul 2 09:23:42 2008 +0200
Reinstated Makefile in usermanual as this file is not generated. Small fix to .gitignore
commit d9279cfbae5f8eb8a7070fe8173547c31be0c696
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Jul 1 23:19:50 2008 +0200
TODO stuff
commit 90fb216e090c3775eac480f0440a7df0ffc70afe
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Jul 1 14:11:55 2008 +0200
Simplified selecting modifications for the cross-linker definition dialog window
commit 7ef5e801d0482a9e7b622fa8a15ca7e061eddea8
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Jul 1 13:46:02 2008 +0200
Added some chemical entity definitions
commit e54af8df77c04e9817ab721046f3e5ee26f3181d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Jul 1 13:39:36 2008 +0200
Fixed linefeed in xml-formatting string for FragSpec
commit c05864dfe9560c4ec5478840647d7e2bb3e6ccf2
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Jul 1 00:11:03 2008 +0200
Implemented multi-region selection when a cross-linked
oligomer gets double-cliked in the oligomer treeview after polymer sequence cleavage
commit aea49b35531758733c15d28afeb87a5dc5a64102
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Jun 30 16:38:54 2008 +0200
Improved error message return for cross-links with no modifications
commit caa054ea2f1d8e13cac46aacff1fe8b068ec9ec4
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Jun 30 15:03:15 2008 +0200
Fixed warnings for casts as detected in MinGW32 compilation and
commit 2d28d2dd1f8e06ac272a2095ebf99064996132a4
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Jun 29 15:30:53 2008 +0200
Removed arbitrary 'sequence editing is not supported in multi-region selection mode'
while in fact it should read 'sequence editing with multi-region selection is not supported'. The difference is that one might
be in multi-region selection mode but only (or no) region might be selected, and in this case editing is feasible (which it now is,
while it was not.
commit b023f1b48ae97ea0919c5ed0df67113e8f7285c6
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Jun 29 14:08:25 2008 +0200
Fixed problem with left margin eating off the sequence
position labels. Force hidden horizontal scrollBar to be always at minimum (= 0).
commit c19fd78a597499b754f9cd0c3bb99f25287f62e2
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Jun 29 11:53:55 2008 +0200
Removed some leftovers of previous selection model and improved some small
GUI-related stuff
commit 787266410ffafbadb37b5b4163b6d82f4c405c79
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Jun 29 00:42:59 2008 +0200
Overall, improved the switch to multi-region selection.
commit a6b786def8c737e8969f1e4c57a8e2240cef8694
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Jun 29 00:42:01 2008 +0200
Cosmetic change.
commit e52d77b1d9919153c2ae9c9fe1824a1426853dcb
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Jun 29 00:41:31 2008 +0200
Fixed serious bug with removal of monomers
that were cross-linked
commit d9d55d6a0e4fb32e83f5e5599a97d12c25a16095
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jun 27 22:46:03 2008 +0200
Fixed glitch with the mass search menu handling function
commit ba541d1054a3adf1088b828cd057819bc3a456ad
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jun 27 21:14:15 2008 +0200
Added recommendation to TODO
commit b0e753c8ac534a75ea9eadb0b60242142158a5b6
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jun 27 21:13:56 2008 +0200
Ported to mult-regions selections the mass search dialog window
commit 0d3b54543a2b295f2f42fd7f8441688b6e27451d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jun 27 21:13:32 2008 +0200
Improved constness of some functions
commit 6bdddc8cd2a56cbed89387df076dcab82b993f68
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jun 27 20:17:42 2008 +0200
Remove debugging strings.
commit cb65ede452238f339834d30d9262de41c560eab9
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jun 27 15:19:25 2008 +0200
Removed debugging strings
commit fe842849221a24eba43e6a75844f65918258e1f0
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jun 27 15:18:07 2008 +0200
Ported the monomer modification dialog window to the
new multi-region selection mode
commit 0f027deff448675dadbbc5f3fa7e077dbd75e5f0
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jun 27 13:48:59 2008 +0200
Updated fragmentation menu handler so as to alert user that .
commit 55a5bfbc475ee6b31e86e3d7122e3697fe18ebe6
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jun 27 13:47:37 2008 +0200
Ported fragmentationDlg to the new multi-region selection stuff, although
it is not supported yet.
commit 080c0d634864d54cde87debe693b2cd62cf85cb3
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jun 27 12:53:23 2008 +0200
Removed debug strings
commit 6c0a4b7d736deba3ccacaacec5e7842403bb9238
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jun 27 12:52:50 2008 +0200
Fixed the results string preparation to incorporate new selection stuff
commit 1552ca49da5d996a51d042a660813bafe8b1ee19
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jun 26 23:44:12 2008 +0200
A bunch of improvements in the multi-region selection handling
both from the perspective of selecting regions with the mouse/keyboard, and from the perspective of
computing correct masses and elemental compositions. Lots remain to be done, but this is a nice milestone
commit 47e47fc9cf4d3f9bcd29ef2dfe775ed1af0bd1d9
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jun 26 11:49:44 2008 +0200
Small GUI improvement
commit 0690b149886341b73054f3b73c543ee5846ed92d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jun 26 10:34:33 2008 +0200
Removed debug strings.
commit c798a42f2e5bdb3dcdf121d6c77c88bb9139e123
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jun 26 10:32:45 2008 +0200
Fixed serious bug with calculation of the masses when cross-links
involve oligomers that are generated using chemical agents that chemically modify the monomers that are cleaved.
For example, mass computations are faulty when dealing with cross-links in the case a polymer sequence is cleaved
with cyanogen bromide.
commit f6e2353304fcc9b2f8eac0634b95e1898dc6d0a9
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jun 25 21:43:28 2008 +0200
Well progressed with multi-region stuff with respect to monomer/polymer modifications
commit 36145844c26710687ac8b821c6152f2fdb660cc0
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Jun 25 10:08:26 2008 +0200
Added kunitz inhibitor sequence as a complex model of intra-molecular cross-linking
commit 74b3ec795c4a20dcae07ca131408cd5914ba9985
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Jun 23 17:34:18 2008 +0200
Implemented optional multi-region selections and multi-selection regions... With keyboard also, now
commit b45eb0ca04c222791d300cb7af30faba4d161c16
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Jun 23 16:52:38 2008 +0200
Implemented optional multi-region selections and multi-selection regions
commit 54db70dd16ecce656423c2773830cec3db5831b7
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Jun 21 21:06:19 2008 +0200
Ctrl-A (Select all) now compatible with Very much multi-region selection.
commit 36702b7ae03f30f3a4d756817f1047d192086d9e
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Jun 21 21:01:05 2008 +0200
Very much improved multi-region selection with keyboard
commit 52f367f4caf6f163762479ff72d87b4a78c3e798
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Jun 21 17:53:35 2008 +0200
Started implementing multi-region selection with keyboard
commit d93c4aae00134ae76d0b338807139339d53230ca
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Jun 21 10:42:02 2008 +0200
Multi-region selection now works using mouse and Ctrl key
commit f5551b67b52421e19070fce7ae4aa82ed1712c21
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jun 20 23:23:37 2008 +0200
Fixed small glitch
commit 4a88ac9415b107c840fc464ee7b8f0b9f7be5aa7
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Jun 20 23:11:42 2008 +0200
Initial implementation of the new sequence selection graphics view scheme. For the record
commit e59830a7b073428b64403eb8f798e721d902df27
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Jun 5 11:14:21 2008 +0200
Finally successfully configured plugins for MacOSX
commit 74f227ac8d1fe13a1f63859df4f61aab5c633f9c
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Jun 1 20:11:13 2008 +0200
Better GUI feedback for incorrect user entries
commit e0f9e6b4e7dbea4ef94a25af262f39f37f9b1fdd
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Jun 1 12:03:28 2008 +0200
Removed debug output
commit b56e8f9b4c15b9b159c123d9ce887fc1b98a8857
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Jun 1 11:46:47 2008 +0200
Added possibility to increment/decrement ion charge in mz lab (m/z,z) list
commit 81fe6a996a50c615a7fd2af314e00188c6dac091
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Jun 1 00:09:43 2008 +0200
Added ability to reionize a mzLab (mz,z) list with a new ionizeRule
commit 05d2b9d046686b9e9b7afda1ec5206a917074e13
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Jun 1 00:08:53 2008 +0200
Fixed ambiguous charge reporting for Ionizable
commit dda6f3d9eceafa1fbe9acb2c236b56b4a79acdea
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat May 31 15:33:59 2008 +0200
Improved script to minimize the size of the library frameworks included
in the Mac OS X software bundle
commit 06d6c59e109b1b34d435ee0ee473d12e648738b7
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 28 22:46:08 2008 +0200
Last Debian stuff for release 1.7.6
commit 210700f91d44ee79602184be47a31b23023961e0
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 28 15:07:50 2008 +0200
Updates in the user manual
commit d555534c07b1049efc16d65072a9d100fe0602c5
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 28 15:07:27 2008 +0200
Fixes in the scripts to prepare packages
commit b9bfc9b92126bfab0b7c176fb6c76f753dcb2da4
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 28 11:03:54 2008 +0200
fixed glitch in script
commit a5c86a88c3a621407039e11f5bb03eeaa44dd2b1
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue May 27 22:51:29 2008 +0200
Updated the user manual with the XpertMiner features' description
commit 18fd160927a08d7a2625f36b2c90c538ae410bae
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue May 27 22:48:46 2008 +0200
Fixed m to m/z in the header of the m/z list treeview
commit b1d9a303117c591d7a7ca74d59c53cfa4a10f4bb
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon May 26 23:44:42 2008 +0200
Switched to license GNU GPL v3
commit 7619ec54b4dbf999bc3281a25a4c4177bd4a3364
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon May 26 22:47:36 2008 +0200
Cosmetic change.
commit 3157264f94bfd2b1197992236f823654344d8c18
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon May 26 22:47:03 2008 +0200
Upon opening of the mzLab, no new input list is created automatically
commit 76052e9be704e50433575e5a51d7f6b80980db49
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon May 26 21:56:41 2008 +0200
Menu Open Sequence now heads to the user's home directory instead
of the system data directory
commit e5199ae680f11b231bd776ca0c7be3ca894a5f0b
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon May 26 21:49:05 2008 +0200
Fixed massxpert.org address in usage ping and fixed the
non-vanishing splashscreen...
commit 0300960858cee26ae18d8db4e0bea7f25e8c88f5
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon May 26 21:48:46 2008 +0200
Fixed massxpert.org address in usage ping and fixed the
non-vanishing splashscreen...
commit 8cf1a2475159472b36f53afc7a8cf127d0be8651
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon May 26 20:30:28 2008 +0200
Added an open sample sequence menu to let the user
choose one polymer sequence file from the distribution. This allows to open a file out of a MacOSX bundle's inside data
commit eb34ef389a99471e84f05486bc5c3ea0199a14c9
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon May 26 00:02:45 2008 +0200
Added drag and drop support for the mass search data in MassSearchDlg and fixed minor
inconsistencies.
commit c4fc1d846fe8dc7d629b7c76609bfbf064ed0f7a
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon May 26 00:00:32 2008 +0200
Fixed critical bug in Ionizable, where once the ionization
was performed, the m_isIonized boolean was not set to true.
commit ae7fb5eef0b4c07e166abb713ad946f6a9749f82
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun May 25 15:23:28 2008 +0200
Added drag and drop support for the fragmentation data in fragmentationDlg.
Fixed bugs with inconsistencies in classes Oligomer, CleaveOligomer and FragmentOligomer which made FragmentOligomer
instances report the wrong charge state.
commit f5109f55f10a609a1a578705bb4544532a1a7553
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun May 25 10:03:44 2008 +0200
Improved all the building material for the MacOSX platform using CMake.
Now the package builds fine both in non-self-contained and self-contained Qt frameworks, thanks to the include-frameworks.sh
maintainer-scripts/ script
commit 30e4e534c7964bdbb40a443f96bc0c52382bb469
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat May 24 14:25:58 2008 +0200
When running mzLab provide the user with a warning that this
is an experimental feature.
commit a524073464bedd8c88a0a4105bfc107c9f7a731e
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat May 24 14:25:26 2008 +0200
Removed debug message
commit 5da86c20732ba20d6a81721f1fdee75fe55c3c56
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat May 24 13:23:46 2008 +0200
Started cmakeization of the MacOSX bundle
commit 31b4c3594ca219af6ff612ee4014c9df446c4569
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat May 24 13:21:49 2008 +0200
Added script to include Qt frameworks in the bundle
commit d1066ae0b836aa1cbe3edf32d28b4a788aac79ee
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri May 23 15:21:30 2008 +0200
At this point I consider the Mac OS X package can be tested publically:
it has the canonic bundle form ; it ships the chemical data along with it ; it is universal ; it can be dropped
anywhere in the file system ; it requires no installation of the Qt libraries as it has them in the bundle
commit 3dbab8946cd62c95dc3f4f0525765bff0ea658c3
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri May 23 13:45:45 2008 +0200
Removed unnecessary QtXml dependency from massList.hpp
commit 353f91dd79cfbe0662fd7f4958e9ea9597e995bc
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri May 23 13:22:30 2008 +0200
Removed unnecessary dependencies from the plugins and improve the
qmake pro files for Xcode on Mac OS X
commit f19bcfc5cc8b9a5f418753d7c0a49e72aa7e94a2
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri May 23 13:21:18 2008 +0200
Removed code that made not finding any plugin a configuration error
commit f95473e063f7262a6b4c6ab0adf0bf69acf7affd
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri May 23 13:20:27 2008 +0200
Added Info.plist for the MacOSX binaries
commit e51175e37e6a7d4b8f449be0adaddb0c87021002
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu May 22 21:17:31 2008 +0200
Started the operations on two lists in the mzLab
commit c75ac1ba6cd0a999324d4b97cfe1dccac2889b84
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu May 22 20:42:16 2008 +0200
Improved the MacOSX bundle preparation, in particular with canonical icns icons file
commit 1940930a46ac8ac2f700ef37cb42749770214706
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu May 22 00:49:33 2008 +0200
Small glitch corrected
commit 6738ac70cc3cfdd916ba3e27f2973bd7bacfc12a
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu May 22 00:40:39 2008 +0200
Better handling of Mac OS X packages through the
use of qmake and pro files to generated Xcode project files able to construct a real
app bundle with universal binaries.
commit 7aa7287e07ba6b993197891035a36f2cbfb8e838
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 21 00:09:26 2008 +0200
Added two maintainer scripts for Mac OS X
commit 3d1465c3a2a0ab75d0f06bb6ed87fc9b11e2f179
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 21 00:08:42 2008 +0200
Added plugins-src dir to SUBDIRS list
commit 2ca8e8056fec6d5e06451b9352f42be31625b2bf
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 21 00:06:37 2008 +0200
Added Qmake pro files so that the project might be compiled using Qmake on MacOSX in case
Cmake does not create correct binaries
commit 60c96247df46c8c9d381f3b5647356e93ea3e63e
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 21 00:04:59 2008 +0200
Fixed unused variable warnings
commit 7b7505e9e57bdb0470aa1f6c5fdd5255d2c88808
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat May 17 10:35:13 2008 +0200
Fixed localized display of the results form massSearch
commit e51acf2c6f748c1122a886d18f84cdd0a2a8ec77
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat May 17 00:37:54 2008 +0200
Fixed sorting problem with new locale-based display of cleaveOligomer
item in the treeView.
commit 608b40eb086e929d2ce6e696983feda80daa9e17
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat May 17 00:33:23 2008 +0200
Fixed non-locale display of mass data in the fragmentation dialog.
The display of the masses should follow the QLocale of the system. Now it works.
commit 54634165028d607adea5e5988bc7f12cff8e800f
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat May 17 00:03:21 2008 +0200
Fixed non-locale display of mass data in the cleavage dialog.
The display of the masses should follow the QLocale of the system. Now it works.
commit 3f5615dedeaa4116a29cf954d6446e5cca3debf8
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri May 16 23:43:41 2008 +0200
Forced display of the mass in the treeview in the form of a string
obtained through conversion double->string using QLocale
commit dfac1c21a71f880cbe6d49a051c67bd093db2ba9
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri May 16 23:41:55 2008 +0200
Cosmetic
commit 5c73118724c44998af80a3126f505689b3468959
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri May 16 13:32:19 2008 +0200
Fixed bug with reionization of analyte and gui glitch
commit 4745c2056ce772555f853de134f1fa6845e9900d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 14 05:02:08 2008 +0200
Added virtual to destructor lib/sequence.hpp
commit f4ebc355ad4de5635de9a57548a6e968fbeb141a
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 14 01:33:46 2008 +0200
Implemented threshold feature in the mzLab, with
two specific cases: when the threshold value is applied on m/z value, or when it is applied to M values.
commit 56923b5a6996db21bf72928a70d1b19e7dd0d43f
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon May 12 22:22:53 2008 +0200
Fixed bug with not deionizing oligomers prior to modifying their masses,
either via mass or formula.
commit 130f1353e16f8dabc5d8826f87329a668073bc59
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon May 12 20:16:24 2008 +0200
First implementation of the simplest feature of the new mzLab
commit a386db83f4e5991b7ca8e0d365aedb8bb7c2b063
Merge: 9f1f46f8f3bc635a6c2425624366685d196b1f5b f274b8c8db69f7586d3fbc0f09529a5e5fcc6f46
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat May 10 16:26:17 2008 +0200
Fixed commit conflicts and code changes so it compiles
commit 9f1f46f8f3bc635a6c2425624366685d196b1f5b
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat May 10 10:26:33 2008 +0200
Huge code cleanup related to constness in critical classes.
Changes all over the place.
commit 2580ece04e150e9b9b3f25e1878b68ea381afec1
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri May 9 13:41:53 2008 +0200
More tests performed after Ionizable-related code inspection. Some bug fixes
and GUI fixes not so important. Removed the Ion class that was of no more use.
commit 6a57379ce577a560e828b7eedbd64a6878001bc8
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu May 8 12:00:05 2008 +0200
Fixed a bunch of bugs, including ones arising as
a result of the big internal code changes. Testing still needed.
commit 18e69a9d23db5dffeb7426813ae67bd0b598feec
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu May 8 00:18:07 2008 +0200
Propagated to Polymer and Oligomer the switch from Ponderable
ancestry to Ionizable ancestry. Code changes all over the place. Will need thorough testing.
commit b88835164a3d2d2d1baf4575209a38084b566000
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 7 17:53:03 2008 +0200
GUI stuff, limiting ranges for ionization rule
commit daf3b458973df90b575552e3e4f62705c4379ff0
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 7 16:19:40 2008 +0200
GUI stuff, limiting ranges for ionization rule
commit 9a2a8203643c7d8604708015048886a716992dae
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 7 16:07:47 2008 +0200
Ported code from use of Ion class to use of Ionizable class, which is
much more adequate for the task. Ion class is being removed from source tree.
commit e18b4171d97487be5cdc17f51450e8f1f2cdc35a
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 7 16:06:49 2008 +0200
Fixed bugs
commit b3694cf0cefcab02789b627274f7e1e452f64a47
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 7 16:06:26 2008 +0200
Fix some gui glitches
commit 14f26a4dc6fefa934c1db27730efc603733467e2
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 7 12:32:46 2008 +0200
Removed accountMasses virtual function, as the Ponderable parent
class's function suffices.
commit 2b9d4855a578a1f1e2ac643947bffd01b9051c13
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 7 11:14:54 2008 +0200
Fixed IonizeRule stuff subsequent to the IonizeRule class rewrite.
Cosmetic changes in the mzCalculationDlg.ui
commit 3dfff3f17e0c19f95e6cac0e8e9249dcfa322bee
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed May 7 11:13:51 2008 +0200
Fixed problem with IonizeRule that would fail validation if
level was 0, which is not a reason to fail validation, as it simply means that the analyte is not
in its ionization state.
commit 23612836fbc1b9063b94447d50a17670303199d3
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue May 6 22:52:47 2008 +0200
Fixed problem with empty <formula></formula> in polChemDef files
which manifested itself as a result of the incremented robustness of the Formula class.
commit 63a04f9630a12e05a5b2e201be274feca56554e3
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue May 6 22:51:35 2008 +0200
Added ionizable.cpp and ionizable.hpp
commit f0dbb424de71f266f0ded6d93db9e208f8634b21
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue May 6 22:50:59 2008 +0200
Created a new Ionizable class that will replace the Ion class and
that will be used as one base class for Polymer and Oligomer
commit abc98f3a7f2cba74bcba89edd47eb79a726d673e
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue May 6 22:49:49 2008 +0200
Improved code checking to increase robustness of the implementations of Formula and IonizeRule
commit f274b8c8db69f7586d3fbc0f09529a5e5fcc6f46
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue May 6 10:45:10 2008 +0200
Utility commit
commit 54c468ffb4591ad50015109bdbd725c6afc477be
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue May 6 08:05:34 2008 +0200
Prepared stage for the output of complex mzLab computations
commit 1c3cec633c2f66e7e0f9eec8f647f035fdec3d57
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue May 6 07:02:56 2008 +0200
Made some class/file renames to prepare future development.
Compiles and runs OK.
commit ea302815a60edfaea04ae778c564ac8c5c46359c
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon May 5 22:26:34 2008 +0200
Fixed a glitch that escaped at previous commit
commit b633125be3b7b198b837387eb98a583246d46463
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon May 5 22:12:20 2008 +0200
User is asked to choose a polymer chemistry definition
prior to opening the mz Lab window. This ensures that the proper available modifications are listed
in the modif list and the default ionization rule is there to be used when creating oligomers
with a text/plain mime drag and drop with only the m (without the charge on the textual line)
commit 3b2ce4c11d0f3723a81361ae48fc1d4bcd286d93
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon May 5 17:52:40 2008 +0200
Removed the massListLab feature as it is going to be superseded
by the more powerful mzLab feature.
Also, setup the window closing procedure for the mzLab as it exists for polymer sequences, to let
the user make sure he actually wants to close the mzLab windows.
Moved the mzLab menu from the sequence editor menu to the program's main window in the 'XpertMiner' menu.
commit b70fbeafcd7f8dbafa471f876417ed7affd71375
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon May 5 12:27:00 2008 +0200
Introduced mechanism preventing mistaken sequential drops of masses
of different mass types (AVG first, MONO after) in the same mzLabOligomerTreeViewDlg.
commit 58201645fc09a03fd3b68fb9e76fb2c64ae1109f
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun May 4 22:47:26 2008 +0200
Now dropped text/plain mime stuff in the MzLabOligomerTreeView is
faithfully converted into oligomers. If each line is "1230.98" then charge is 1, else if
line is "1230.99 3", then mass is 1230.99 and charge is 3. No more flexibility might be envisaged.
commit cac40e966e3877ff4a084c59038ecff63e4361db
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun May 4 22:18:07 2008 +0200
Removed assertion that mp_polymer be non-0 (one more location to change).
commit 568c00122122ed681d0235ce88feed63cac61df1
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun May 4 22:17:30 2008 +0200
Removed assertion that mp_polymer be non-0
upon construction of an Oligomer. This requirement is problematic in some places.
commit 42637a1751a9f956b56b0d95341cc65894ff4ccd
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun May 4 16:42:14 2008 +0200
When opening mzLab, the user is invited to name a
mz list immediately. That saves an inevitable button click. Gui improvements.
commit 318daabcbc1666601f3e3835339eb1829e3f9ead
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun May 4 15:10:53 2008 +0200
Now CleaveOligomer... stuff handles text/plain mime type correctly
commit 621da0d852e5b964b76298fb4b3908d80f4284f4
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat May 3 21:30:11 2008 +0200
Framework for drag and drop from
CleaveOligomerTreeView to MzLabOligomerTreeView now set up. Requires testing and
generalization to the other oligomer-generating processes (fragmentation and mass search).
commit 0b81c57d16b99f4821141ed7d1752ee888513c68
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri May 2 22:53:18 2008 +0200
Small bug fix (unrequired memory use)
commit 79f19d3685667e07e7575f766cf2cbef36fd3478
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri May 2 20:33:12 2008 +0200
Fixed charge accessor constness
commit 8f0e30ca782d001a0cd5ab7d8ff1fa2f42ca67ac
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri May 2 20:30:14 2008 +0200
Added accessor function for mass with MassType argument
commit a28831d3f258ebbfd018d1f9eb98f726e3cce453
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri May 2 16:19:58 2008 +0200
Improved the handling of the list-holding dialog windows for mzLabWnd
commit 21c47028b62130416724b4657874be4fb8ccd663
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri May 2 15:03:01 2008 +0200
Started implementation of the mz lab's input oligomer list dialog window
commit 3458cb6b14c17c3c6ffa98c37cf3ef98818e0f53
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri May 2 10:59:23 2008 +0200
Drag and drop skeleton is ready.
commit 51363ed0c3c1243356a281b4465371180304350b
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu May 1 15:08:45 2008 +0200
Started work on the mzLab...
commit 310c36c60ca4300f2aea0ddddaa9895a46538a68
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu May 1 15:08:23 2008 +0200
Removed a number of old junk files in the gui tree
commit f4981e0e49a0a9714d03f15e8db070ffa2ffe711
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Apr 26 21:42:02 2008 +0200
Updated TODO
commit 0b7c30d95e4ee993afeb7eeb0489f983ee553eee
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Apr 26 20:14:57 2008 +0200
Fixed GUI problem with sequence editor window where the
polymer modifications' widgets were consuming too much horizontal space
commit 35f5f3db20ceec3d771025310567ad28cd41b52b
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Apr 25 22:01:38 2008 +0200
Code as for release 1.7.5
commit 844a3ba5b382cb4b5130aa3458964fcdee034d18
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Apr 25 18:02:46 2008 +0200
Updated manual for the Mac OS X-related install descriptions (added screendumps files)
commit 185f6aa995ce4df59f14dd072e0b5f62db828918
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Apr 25 17:51:26 2008 +0200
Updated manual for the Mac OS X-related install descriptions
commit 685f450168d565dbd3157dc82cf984e5b7488042
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 24 20:53:22 2008 +0200
Fixed linguist files after conflicting merge
commit 22e6836134bee3504d52050d31c1c86ae02aefe8
Merge: d119a196eaf2cafd34b8ed25775a2525ad53ecaa a0cb0bcc8685dad2d5d35a68f203a77daaa44208
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 24 20:50:38 2008 +0200
Try to resolve the conflicts
commit a0cb0bcc8685dad2d5d35a68f203a77daaa44208
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Apr 23 22:03:20 2008 +0200
Moved OligomerMzLabWnd to mzLabWnd
commit 3548df7b461253fd3163ac77a7af66e716027b2e
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Apr 23 22:02:36 2008 +0200
A bunch of gui fixes along with french translation fixes
commit de475d4a5cd7ff16d7e1913db88b276661345846
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Apr 23 14:26:17 2008 +0200
Updated the french tranlation
commit 30cb7c282a8255db8aa6e1bd3e208fed1b78ade2
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Apr 22 21:56:47 2008 +0200
lupdate run on massxpert_fr.ts and generated massxpert_fr.qm
commit f7a654b50ba4630c021a5afbb626ea57f3568fd0
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Apr 22 21:56:13 2008 +0200
Added -verbose to the lupdate command
commit 12dcabee335de5c66520e8c6f264f2175ab59558
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Apr 22 21:55:49 2008 +0200
Fixed loading of the translation file so that it finally works
commit d119a196eaf2cafd34b8ed25775a2525ad53ecaa
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Apr 22 13:35:22 2008 +0200
Updated localization stuff
commit 9a19cfab031978356c268bfc000ba9856b7df1b5
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Apr 21 20:53:25 2008 +0200
Small fixes
commit 94efc29ef70c3e020197e187dd0d125b548ea622
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Apr 21 20:52:48 2008 +0200
Added linguist udpate script
commit 2ccd2405949088b56a51c6df99ebea3407da6bfa
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Apr 20 17:00:11 2008 +0200
Updated french translation
commit 57be27ce599e04c5a466b5e871a6f580c66a12e6
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Apr 20 15:48:21 2008 +0200
Added possibility to erase all data configuration locations
from the user's /home/rusconi/.massxpert/configSettings.ini file.
Also, improved the fallback mechanism when data are not found in installation locations: the user's config settings
are searched for, and if not found, the user is prompted a dialog window where to enter manually the different locations.
commit dd4599e012c6b429da4128abd7a87ba11b3cf7c7
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Apr 20 12:22:22 2008 +0200
Changed the QSettings to be of INI type and located systematically
in /home/rusconi/.massxpert/configSettings.ini file whatever the platform (thus nuking the evil windows registry database.
Also made changes here and there to ensure that the new polymer chemistry data locations strategy works. Still needs testing.
commit d3701a5b87171baf2208c5a4b291dc8052fbd513
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Apr 20 12:20:11 2008 +0200
Removed the template catalogue file call as the full path is no more
required to qualify the location of the polymer chemistry definition data
commit a5de8f5deb0c31ae2bafd48b8166a0ac1b87ff32
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Apr 20 12:19:10 2008 +0200
Installation directories set back to absolute paths for all platforms
commit 5f429a1bb374bff75d6d7595741884b09e774903
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Apr 20 12:17:16 2008 +0200
Fixed parsing code to allow relative paths to be
given in the catalogue file (to allow relocation of the data)
commit b974dd85655427acbc128ce96c65198e25375299
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Apr 20 12:08:46 2008 +0200
Made the paths to the polymer chemistry definitions
relative to the data directory so as to allow better relocation of the data directory
commit c898c6ab854e2d3225d77eac54dbd476feb106ef
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Apr 20 12:07:11 2008 +0200
Added a configuration settings dialog window to let the users
tell massXpert where the data are re-located
commit 4427d9441a18ba70f0da6856e05ad7235b32d62a
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 17 21:45:11 2008 +0200
Removed debug message.
commit 0bb6482c7e760c88f8185d3b2615dde50e96df76
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 17 18:14:48 2008 +0200
Cleanup of some merge conflit residuals...
commit 547665fc824f2c09e713f27efd1c31850c05d80b
Merge: 17586007e2838b905c05cc2742cb7d5ba4f91ebc e7571a04fa2703b086a3a333a9294dcb1845fe21
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 17 17:56:14 2008 +0200
Fixed merge conflicts
commit 17586007e2838b905c05cc2742cb7d5ba4f91ebc
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 17 15:00:43 2008 +0200
The massxpert install directory might be relocated as a whole
in MS-Windows and in the Mac OS systems.
commit a19f6eb819c6bd6434f7c92b08eba11d4f5e418e
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 17 12:50:24 2008 +0200
Fixed a bunch of declarations without initialization and
unused variables due to compiling in release and not debug mode
commit 148672cafb3acc4af892ed72df619daafd343d12
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 17 11:21:06 2008 +0200
The massxpert install directory might be relocated as a whole
in the MS-Windows system. Still to be tested for the Mac OS system
commit 37946980e96263899fbe19e91f663bdf1d12ef93
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 17 10:53:04 2008 +0200
Fixed uninitialized variable use
commit 5ac0535451acf3c8ae943e56357514419a04eaae
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 17 10:45:00 2008 +0200
Fixed uninitialized variable use
commit e7571a04fa2703b086a3a333a9294dcb1845fe21
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Apr 15 22:37:23 2008 +0200
Fixed typo that led to a crash
commit 65762529c6d1ea68c604f57e3692d3830392c3ae
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Apr 15 22:03:29 2008 +0200
Fixed plugins linking stuff when platform is APPLE
commit d1db9bdfba16f30018c715a22c12663629864179
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Apr 15 21:18:29 2008 +0200
Incremented strictness of compilation and fixed a number
of Q_ASSERT () statements that turned out to be "variable not used" when compiling in release mode
commit e2b0f02c600d9b266bd25e85e41381fd6e9eb2b8
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Apr 13 21:36:34 2008 +0200
Good refactoring work. Still work to do. Compiles
commit 3d8922b3492452542f1891432ce44e4483dc75d3
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Apr 13 21:09:40 2008 +0200
Added Ion class wich add one IonizeRule to Ponderable
commit 01a93a5702e16782b39ea2fb31c48a48b83eba61
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Apr 13 16:15:50 2008 +0200
Very much improved the Prop's abstract semantics
commit 0e3fc4872f9b727ea56ca6c7bf47a77d30777e14
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Apr 13 14:36:42 2008 +0200
Added PropListHolder class and added pure virtual functions to Prop
commit 40720cf32797b4d6885862c20e49c876c1445a5c
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 10 12:28:51 2008 +0200
Some missing massXpert namespace in some files...
commit 192e5eff32cb4ad85aad86073172ad72cba0af19
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 10 00:49:49 2008 +0200
Introduced namespace massXpert
commit 23726dab9239eec90e9de5db35bf5fc32e947ef2
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Apr 9 10:49:39 2008 +0200
Last missed --/++ de-incrementations fixed
commit 4dbe8025d142e2f11393b9a2ca95085ce8c4fdf0
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Apr 8 22:39:10 2008 +0200
Changed everywhere identif++ or identif-- with ++identif or --identif
commit 5cd607edf0f03559a4c4b5c3eb11c00b7e658af5
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Apr 8 22:08:41 2008 +0200
Some more TODO
commit 818dfd69b679e09658ee4f2f1fe7e07da7da256d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Apr 8 22:08:21 2008 +0200
Trying kdevelop as a development environment...
commit 29d0e969d88ddf0962a6e8e7ff782065c47d55bd
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Apr 8 17:21:15 2008 +0200
Well advanced in code cleanup
commit 423d20f2370ce534f263042a6d04e510d12d4f0b
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Apr 8 17:02:05 2008 +0200
Well advanced in code cleanup
commit ab2a11ce453ea2ff4355bddd87ae409de5df9047
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Apr 8 16:51:49 2008 +0200
Well advanced in code cleanup
commit 7806ed8d6b80928c221a9a7cd3ed82b4a4fddcef
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Apr 8 15:22:24 2008 +0200
Initial step in code cleanup
commit b3c508a017cd6e7506831cc1d251be5d52a7ccd1
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Apr 3 10:52:51 2008 +0200
Updated debian/changelog
commit a9a6800c2a1d2008d0f7ad1e0a657ad782d23aa0
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Apr 2 22:41:42 2008 +0200
New version of the dna.xml file using the new fragmentation
specification for fragments a-B (abasic a fragments)
commit df316853193aa6e3b276bb47b4535691cf3d3962
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Apr 2 22:40:57 2008 +0200
Bumped version to 1.7.4
commit b399c43800f015f6649d0436f886fd1ccf149234
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Apr 2 22:40:40 2008 +0200
Cosmetic debug message change
commit 2aaa5785d53da9d5297109baaa1ded7c74fa2711
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Apr 2 22:21:41 2008 +0200
Fixed bug with the side chain contribution member data that was not initialized properly
commit 4f5576897970ab78ca9b26e1088f3bc5fa64411a
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Apr 2 18:19:26 2008 +0200
Updated user manual with new fragmentations stuff
commit d1a665e8c2e4c1ffac4184f274568122c95622f8
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Apr 2 18:15:52 2008 +0200
Bumped to version 1.7.4 as the source is being prepared for release
commit bdc6d95c6e277bf3c9409f343be9e4a0ea480385
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Apr 1 20:16:19 2008 +0200
Implemented much better fragmentation scheme when
the monomer's residual chain is lost, for example with nucleic acids, the fragmentation of the
skeleton might be followed by loss of the monomer's base.
commit 387989155f0ab51016dd79302aba2d9f2a32a189
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Apr 1 20:14:35 2008 +0200
Fixed memory leak with the fragmenter being lost at each new fragmentation
commit 8afdf5558a0b97945a0c2409e8e57354655093f5
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Apr 1 19:41:52 2008 +0200
Fixed bug with the a-B fragmentation rule for Guanine
commit 5deda8e7a1ff425cf3a90fbad76f43b8d1891205
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Mar 31 21:14:01 2008 +0200
Fixed bug with saving fragrule data for polymer chemistry definition
commit 6ce59e8f76e3c8fc37fc5c0835decfcbf7108926
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Mar 30 22:00:14 2008 +0200
Updated french translation with some corrected strings
commit df924fcccc023136c0499454ecca85fe7145bcce
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Mar 30 21:56:22 2008 +0200
Fixed some string glitches
commit 3ff641b6d562566263bebcd205030e80a583e549
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Mar 30 21:40:45 2008 +0200
Updated french translation
commit fc1595feb0a4d2dac4d16fb4fc1379441ca4c0e2
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Mar 30 21:40:29 2008 +0200
Fixed GUI glitch
commit a49710f5c4b8cdba3281b676209c87eacb2dd4d1
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Mar 30 20:13:04 2008 +0200
Last changes prior to release version 1.7.3
commit 94ad5b0a5af0523ab1f6440980a26341273dbb22
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 29 22:07:57 2008 +0100
Very much improved the user experience with the filtering
of oligomer data as now the last widget used to perform a filter is remembered through different
filtering cycles, thus alleviating the cursor-moving work (with keyboard or mouse)...
commit 8bbe44400eb4718a96c6d3a361a3f95cf129a2a6
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 29 20:46:35 2008 +0100
Added invisibility of the filtering options so that the
corresponding group box is less invadent. Also fixed a little glitch with the mass search dialog window.
commit c822a4a4fe3bb898a057491381cce5e97b3a2991
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 29 16:08:46 2008 +0100
Added key sequence shortcuts to the oligomer data filtering
options group box to simplify performing many circular filtering operations
commit 75dd5f1fafeaf3930313baa9300772b4369d1208
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 29 16:08:01 2008 +0100
Removed items for TODO as these have been done
commit fa06fab9ffe72831eabf263150765aea3b00217d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 29 16:07:22 2008 +0100
rename figure file of user manual
commit 35259fb4dcd49b9694ba8c3f0857d4ea00122885
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 29 16:06:12 2008 +0100
Updated user manual to document specifically the oligomer data filtering
new capabilities for cleavages, fragmentations and mass searches.
commit b0bb73cd7cff65f332c7c15fa7457ebaa58e9321
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Mar 28 21:59:30 2008 +0100
Removed crossLink leftovers
commit 479b006d2f2ba278d006acfafa81f8b2cce57a28
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Mar 28 21:35:09 2008 +0100
Implemented check that the name of a new cross-linker is not
already used as a name of a modification (and vice versa), as the name of the cross-linker/modif is
used to determine how to render graphically the corresponding chemical entity (cross-linker or modif).
commit 57174fac510daf36c388a1c4e9ff2bb8476f2098
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Mar 27 23:12:01 2008 +0100
Implemented filtering on the data obtained after
mass searches in the polymer sequence
commit d333fa8eddbe97e40f90d098a1ed5bfa0008d70f
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Mar 27 11:32:30 2008 +0100
Fixed regression for the capturing oligomer mono/avg mass lists in
> the clipboard due to changes in the treeview oligomer data display related to the filtering feature
> added recently
commit 226ddafde5ad156bde0b74ce5f98656e52011822
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Mar 27 10:50:00 2008 +0100
Fixed regression for the capturing oligomer data in
> the resultString due to changes in the treeview oligomer data display related to the filtering feature
> added recently
commit b8e45f7c76b912d04a8860cabeddbd14e067d138
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Mar 26 22:19:05 2008 +0100
Implementing data filtering for oligomers obtained
via fragmentation of a selected oligomer region.
commit d56368d799f8cf0c81a46a119467ccf1b3247a52
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Mar 26 22:18:19 2008 +0100
Fixed locale conversion from string to either int or double
commit 03e510d49368f4e08f5dd7ada7e4895ff5496c2f
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Mar 26 12:25:22 2008 +0100
Source is now as for release 1.7.2
commit d20b9c4dd5c6b3f62944b484bd5cba4735079d9f
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Mar 25 20:45:47 2008 +0100
Updated the documentation to explain/illustrate the new
filtering of the polymer sequence cleavage-generated oligomeric data
commit 28d25a5a0838d0725ea711441321d3a03ee2bbf8
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Mar 25 20:35:11 2008 +0100
Bumped version to 1.7.2
commit b2ebac15427941d1367289eef08b78ab13de4610
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Mar 25 17:07:59 2008 +0100
Added filtering capabilities to the results of a cleavage
commit 8bd19f91a7c6bc876798d475b4edeb94acd59b13
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 22 14:19:30 2008 +0100
Minor user manual modifications
commit 93a55dbaea166d441bbfcf80a1c8ca35ae8070a5
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 22 11:40:58 2008 +0100
Deleted leftover since a long time
commit 0cf2e374dd6ab9a508821d05541c5581378e7d88
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Mar 20 20:42:21 2008 +0100
Fixed minor bug that caused compilation to fail in release mode
in the MacOSX environment. Thanks to Luis Alberto Alvarez, one collaborator of mine in mass spectrometry
of fluorescent proteins...
commit c4aef42e30717c7243ac3e45c4653b17832d22cc
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Mar 19 15:17:20 2008 +0100
Last fixes for version 1.7.1
commit f60a66c9759137d7f6dc03b581a541254ccb28e5
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Mar 18 17:22:46 2008 +0100
Increment version to 1.7.1
commit 8d4db5f49ae85de9c5e6d57407a3a0544e75eda9
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Mar 18 17:22:19 2008 +0100
Added sample protein file to illustrate cross-links
commit fd8828585b57342d47414b7393661b3fb94963c2
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Mar 18 17:21:32 2008 +0100
Updated the user manual
commit 89002af5d798825652d0ffee70b7cc511496a4d4
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Mar 18 14:20:14 2008 +0100
Improved history handling to find sequence feature.
commit 7f7c7c53833df5011681dc33a347e75ea338a511
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Mar 18 13:25:26 2008 +0100
Added history handling to find sequence feature
commit 3da455d7b6eeb15c25e52f06f4d13f9b7a56560f
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Mar 18 12:27:52 2008 +0100
Tweaked the menu shortcut sequences
commit 89db48767779c38eb4880f74e15b8faff9ed808a
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Mar 17 21:48:09 2008 +0100
Fixed bug when parsing formulae starting with no sign in which a '-' sign
would occur later. For example, CH3-H would fail, but not CH3+H or +CH3-H. Discovered thanks to a mass spec data
analysis session on bacterial toxins with Dr Muriel Gugger from the Institut Pasteur, Paris, France
commit 416f79e079adad892522f9d7cad68a1a4bb4161b
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Mar 17 15:28:07 2008 +0100
Implemented simple find sequence feature: added untracked files
commit d38288cf53c163f7e5bcacd3cc7deb6da458e7ad
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Mar 17 15:27:43 2008 +0100
Implemented simple find sequence feature
commit a9c9c24f098e959a631e249a3a5921ca28084420
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 15 10:50:47 2008 +0100
Added support for adding cross-link-related information to results' strings
commit 1634fc83ed0f316b15fa755b72fdf3949b5536af
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Mar 13 22:31:01 2008 +0100
Updated the manual to include changes for monomer modification and cross-linking
commit 2fd4ac133783fc16db0ef5efa478312208ace50b
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Mar 13 22:29:31 2008 +0100
Remove exec bit from file
commit 7e37889bdae16aa86646377908fe22afa1ec971c
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Mar 13 13:43:00 2008 +0100
Now cross-links are correctly taken into account when
making elemental composition calculations
commit ec049850e89afc3c76c63f27fe0218eada19c334
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Mar 12 22:06:34 2008 +0100
Fixed definition to allow cross-links for cyan fluorescent protein
commit d52dda973e0760dc7a4b704eb78161e45ff3fb34
Merge: 2043fc73f1f0d342501c7aec42209ca9cb93a756 4812d87c9d6bf54be54c239edc3b65b783a6fa34
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Mar 12 12:35:23 2008 +0100
Resolved issues with merge of crossLinkFramework with master
commit 4812d87c9d6bf54be54c239edc3b65b783a6fa34
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Mar 11 22:24:37 2008 +0100
Preparing all the example data for program checking and next release
commit 384d77de439e288c2f511e7a3b25fc0e31d4a192
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Mar 11 09:53:49 2008 +0100
Cross-links are now correctly graphically rendered and disappear when
one cross-linked monomer is removed. Cross-links are correctly rendered upon load of a polymer sequence
commit 65392badd5271d726d1c121190c16339a725f638
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Mar 10 20:33:27 2008 +0100
Done with the new way of handling monomer modifications, more than one
monomer modification. Still lots to do with the cross-links.
commit 4974c2d98a85a6d7c0a6fa0bbb395a5bd035e1f1
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 8 16:42:34 2008 +0100
Stumbled upon a bone: how to allow more than one cross-link per monomer
while having a correct vignette handling... This requires some rework even in the monomer modification field.
commit 23d4c833e9eafa048d3ff034bb0e89f9ce21474d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 8 16:40:53 2008 +0100
Adding data for new cross-link features and new handling classe (MxpCrossLinkerSpec)
commit 853f19c75a38f3cd884e61eecbc18a4ddc97ce00
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Mar 7 21:44:28 2008 +0100
Cross-links are now only taken into account for 0-partial cleavage cleavages
and masses are correctly computed and coordinates and oligomer names and oligomer sequences show up correctly
in the cleavage dialog.
commit 604a514d3b2c1b44b26c5ad7ff36ce9001638e54
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Mar 6 23:04:41 2008 +0100
Now masses of cross-linked oligomers seems to calculate correctly.
That's a good achievement. Still need to find a way to correctly name the cross-linked oligomers and
to correctly display the cleavage cross-linked oligomers in the treeview...
commit 35bb7db1f3f6a86e164d4332e93d8c66b3ab65e9
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Mar 6 13:38:44 2008 +0100
Cleaned and made more robust (with fixes) the code handling the computation options
with better-crafted bitwise operator stuff
commit 78618a6622fffe84df6a4319d59e272f1ee0a1fb
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Mar 6 10:39:08 2008 +0100
Modified polymer calculations so that it is now possible not
to reset the masses each time a new polymer mass calculation is performed. This will be useful when it will
be necessary for cross-linked oligomers to computer their masses...
commit 4c8d25568385f535027d44accc17058889536be5
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Mar 5 23:21:56 2008 +0100
Redesigned the way oligomers are generated and mass-calculated and ionized
in view of the new requirements due to handling the cross-links.
commit 2043fc73f1f0d342501c7aec42209ca9cb93a756
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Mar 5 22:14:21 2008 +0100
Fixed apparent bug due to not applying cleavage rules to
right-end terminal oligomer of cleaved polymer sequence
commit f1d3011c76a49b58d4f3b683703d8ff3d816fd9e
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Mar 5 22:11:04 2008 +0100
Strange, need to commit twice ? What are you doing, git ?
commit 6d578269c994198b42105d92dbb525f904d25149
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Mar 5 22:06:55 2008 +0100
Modified the MxpPolymer class so that it derives from a
MxpCoordinateList of MxpCoordinates objects that represent oligomer sequence coordinates. Oligomers
can thus be cross-linked by listing more than a single MxpCoordinates instances. Adapted code
everywhere so that this change does not show up in the GUI for the moment.
commit c5a82d0b0a07a616326cdfaf3e6ce3e0af7225df
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Mar 5 10:54:06 2008 +0100
Apparently good algorithm for sorting out cross-linked oligomers
out of a list of oligomers. Still need to clean up the code and to compute masses
commit 4bd40c33edaf534ba0e54297c4b11a27d1bc675b
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Mar 4 21:59:12 2008 +0100
some new TODO stuff
commit 950a170cd6402b6ae37075a8f1ba8a86a39ce3e2
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Tue Mar 4 11:37:04 2008 +0100
Fixed bug with assertion that list of cross-links is not empty, which
should not be asserted as in fact a polymer sequence might not have cross-links
commit f39877f62ceba9cb23c9860f0bd2501419ba7786
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Mar 3 22:50:58 2008 +0100
New cross-link analysis after polymer sequence cleavage. Not finished yet
but works on a sample easy doubly cross-link pair of trypsin-generated oligos.
commit 810cb964a50116453fc0cbe53c3b2ac2b6c993c7
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Mon Mar 3 12:26:10 2008 +0100
First cleavage cross-link-handling hypothesis by
iterating in the list of oligomers. Not tested yet, but compiles
commit c63318abb95ebfec8f8bea84488900a6dc657843
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 1 22:27:45 2008 +0100
Displays the number of incomplete crossLinks in the selection
and actually compute correct masses for the selection now.
commit 21276345da7087ba20680804cbcd1280dcb602af
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Mar 1 15:57:46 2008 +0100
First successfull computation and display of crossLink-containing polymer masses\!\!\!
commit e946d5476bf9ae16e1da2f3e40c698ec122ef67d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Feb 29 22:44:28 2008 +0100
At this point the GUI around creation/viewing/removal of crossLinks is OK.
commit b88e98bc7bb963b4cc2260349a3845fcfd6a72d8
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Feb 29 18:16:39 2008 +0100
Fixed the signal/slot stuff by using more conventional programming. Works.
commit c318119d36f5b6abd628aa6e95806d54308ee634
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Feb 29 13:15:28 2008 +0100
Stumbled across a signal/slot handling problem. Saving a correct state
commit 4a923865def7415b4b1964cf1330f635a615703f
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 28 23:06:28 2008 +0100
The GUI stuff around the crossLinking of monomer is very well advanced.
commit ca0a987ae60cf44d1e452ae5193ec9e582559331
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 28 18:06:16 2008 +0100
Convincing steps towards a nice GUI all for monomer crosslinks
commit d96218490399972764178db7cdbb301307b8b112
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 28 17:00:57 2008 +0100
Initial work on a unified crossLink creation/viewing/removal GUI
commit 85210a98491fea09c87dd3e367f6d627748d9b10
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 28 12:49:45 2008 +0100
Correct saving of the crossLinks and correct destruction of
crossLink when a crossLinked monomer is destroyed
commit e2eb3dd3edd915ee08feed44e80acc6443b5a626
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Feb 27 23:15:20 2008 +0100
Now compiles with the main new crosslink framework setup (almost nothing GUI\!)
commit 220b8eaf299ce1a319a6079103ccd2f2dc51e3fb
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Feb 27 18:08:03 2008 +0100
Commit to ease a diff with initial version of the cross-link framework
commit 6ad4af71e56393f9095d031b4e56a35c59643bdf
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Feb 27 16:26:27 2008 +0100
Commit to ease a diff with initial version of the cross-link framework
commit b33bb8e77ed164fa1becf136b159890163972cf8
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sun Feb 24 12:06:16 2008 +0100
Fixed bug with monomer code syntax check when code is more than 1 letter-long.
commit a8f925f3a1f9eae01100b192b804d96c5e614b51
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Sat Feb 23 19:39:36 2008 +0100
Source tree as for release 1.7.0
commit 0261df03207e41e8746388a0527d652f4952e113
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 21 23:16:02 2008 +0100
Added massxpert-doc.7 man page and fixed the massxpert.1 man page
commit 861171e042a17056214d68e25f052ef7082a10dc
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 21 23:15:08 2008 +0100
fixed some glitches with maintainer scripts
commit be5777fdd08719288fb16e671ce7e2c5c5e5ed5d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 21 20:45:56 2008 +0100
Updated some stuff in .gitignore
commit 7ec3cf34c8605992b1a48db61ef1e8df078ae6f9
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 21 20:44:35 2008 +0100
Added simple rsync script to easily synchronize the usermanual stuff with massxpert.org
commit bee314e08fae995cf429786dea4351c208ce9129
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 21 20:43:49 2008 +0100
Updated the documentation to reflect the changes in whole polymer sequence modification
commit 1656051018028caaf14620a8d2d80a2f9568eb6a
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 21 20:43:13 2008 +0100
very well improved the maintainer scripts
commit 5a5cc7de5d45f9534844e99c23207db75c3cf0ea
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 21 15:03:02 2008 +0100
Saved protein-1-letter.mxp so that it ships with new polymer sequence file format
commit 9cdda64a303c3bd8f41b1dde788c6b3b913f48b1
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 21 14:22:44 2008 +0100
The polymer might now be modified using a on-the-fly-defined
modification that will be properly taken into account during element composition calculations, file saving and file loading.
commit 5ef6522ab6c62a20d5264a5a842b0b5b3ead3f47
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 21 10:39:23 2008 +0100
Upgraded version of polymer sequence file
so as to be able to store the polymer sequence modification as an <mdf> element with
full description of the modification and not only the name. This is required because we want
to allow the user to define on the fly a polymer sequence modification and store it in
the file.
commit fb111c58edbc2c1231bf3350782c26914d63da3d
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Feb 15 21:36:04 2008 +0100
source tree as for release 1.6.9
commit 70b32fa83a2eaee290d03563b0985162ce177ad8
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Fri Feb 15 14:30:29 2008 +0100
Added conditional on WIN32 so that the plugins don't suffer
from lost references upon linking in windows
commit 5d35bd1372ae3e14afd65ebf622cd158c54a39eb
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 14 21:52:24 2008 +0100
The config of the window is now saved/restored (the splitter in particular)
commit 8a74499be92d9b82dcd1b47b8638d916f7ed3a4f
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 14 21:40:26 2008 +0100
It is now possible to modify a monomer in the sequence
directly by setting the name, the formula and the targets of the modification in the monomer modification dialog window.
The modified monomer will contain a MxpModifProp as if the modification were performed using a modif from the list
of the polymer chemistry-defined modifs. That modif will save to the polymer sequence file and the file may
be loaded without having that modification defined in the polChemDef.
commit 0773e3227b41aa0b828ff4d7d79e1d4fc9b2ec54
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Thu Feb 14 20:54:17 2008 +0100
Added provision to pass a pointer to the polymer chemistry definition when
creating a MxpProp instance. Added version management to the polymer sequence xml files (this only existed for the
polymer chemistry definition xml files. Finally, changed the handling of monomer modifications so that the monomer
now holds a property that itself points to a fully-self-contained MxpModif object, and not only the name of the modification.
This will make it possible to modify monomers with modifications that are not defined in the polChemDef, thus allowing a
more flexible relationship with the monomers in the polymer sequence (personal requirement for my own experimental needs).
Further, this allows the saving of a polymer sequence file with monomer modification fully defined, and not defined only by name.
This means that it will be easier to send a modified polymer sequence file to a person who does not own the corresponding
polymer chemistry definition.
commit 860234769897d333bc76abcdc86819b491f725ef
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Feb 13 23:29:19 2008 +0100
added usermanual/pdf to .gitignore
commit cbffd15e2d0d98d28e7cb6e3be1b9a521f3669a0
Author: Filippo Rusconi <rusconi at mnhn.fr>
Date: Wed Feb 13 23:26:20 2008 +0100
Fixes with the cross-link stuff
commit e6b0b17d06050b226f5db058b639a9a6d37b35e8
Author: rusconi <rusconi at rddm503pfr.mnhn.fr>
Date: Sat Feb 9 19:38:16 2008 +0100
cosmetic
commit 05d077f4115e1413a59168dfdcfa2be67445f415
Author: rusconi <rusconi at rddm503pfr.mnhn.fr>
Date: Sat Feb 9 11:51:31 2008 +0100
Added GUI pushbutton widgets to sequence editor window to
show the left/right ends' modifications. The buttons open the polymer modif dialog window.
commit fb29f5925c110940d5212308f8284819e49ccae0
Author: rusconi <rusconi at rddm503pfr.mnhn.fr>
Date: Wed Feb 6 13:14:31 2008 +0100
Added the Cytosine modification for the hairpin branching
commit 1748f869d76f707c16ac66e302fb42807f8b6c21
Author: rusconi <rusconi at filo.(none)>
Date: Tue Dec 18 22:01:41 2007 +0100
One last modif for release 1.6.8
commit c2507a1c9ace22f9fe0d71e18672634a503b8df3
Author: rusconi <rusconi at rddm503pfr.mnhn.fr>
Date: Tue Dec 18 11:45:34 2007 +0100
Small change in maint-scripts/prepare-debbench
commit 3d47b713b5d655c523eb6addf4c5daa5636f5af6
Author: rusconi <rusconi at filo.(none)>
Date: Mon Dec 17 22:46:49 2007 +0100
Changes in the user manual reflecting changes both in the
build system and installation procedure and in the new polymer chemistry definition UI design.
commit 73dc488eff3ba55c443c6493b766aa022c46d80c
Author: rusconi <rusconi at filo.(none)>
Date: Mon Dec 17 22:44:51 2007 +0100
Added script to check for unused figures.
commit fa2722aebaa52ac469b1d367e5470a7804c6d691
Author: rusconi <rusconi at filo.(none)>
Date: Mon Dec 17 22:44:20 2007 +0100
Some small bug fixing and UI fixes in the new polymer chemistry definition code
commit f6a9c82217d7318e17a4f2a191f4cf0e656f23e8
Author: rusconi <rusconi at filo.(none)>
Date: Sun Dec 16 12:39:14 2007 +0100
Round of bug fixing within the new polymer chemistry definition GUI design
commit ceea4bb1261ed18244ccdb233994f35b5752b72d
Author: rusconi <rusconi at filo.(none)>
Date: Sat Dec 15 23:09:56 2007 +0100
Starting preparation for release 1.6.8.
Made changes to some file locations so that these files can be used when
preparing rpm packages also. Added a .spec file for rpm package generation.
Removed the lintian override file as the problem with some plugin share libs is solved.
Fixed an error in the massxpert.1 man page. Fixed/Improved some maintainer scripts.
commit 9c1b4fe1450114239e75a3b304e582624f1ac46c
Author: rusconi <rusconi at filo.(none)>
Date: Thu Dec 13 22:49:41 2007 +0100
Fixed the 'objdump -x libpluginlib.so | grep TEXTREL' bug
by removing masslib from the TARGET_LINK_LIBRARIES () call in each CMakeLists.txt file for each
plugin. Now the debian lintian program should not complain any more about hlib-with-non-pic-code
and more so the fedora build now produces plugins that show up in the main window menu.
commit 9e25f134a409899eb33ab16c4b3ddcaf19d48b40
Author: rusconi <rusconi at filo.(none)>
Date: Wed Dec 12 22:17:19 2007 +0100
Fixed the .gitignore failed merge
commit 5c37a6a90423b44b4bc49c012f9be538a9da2ae7
Merge: 1c275f83e4e2b09c3a31344e55d88f4603fb6b57 2b53b0fb2b9ae66947cf583841f39dee96e13e52
Author: rusconi <rusconi at filo.(none)>
Date: Wed Dec 12 22:13:57 2007 +0100
Reimplemented the polymer chemistry definition GUI, changed all filenames form this_style to thisStyle.
Implemented MxpCrossLinker and started implementing MxpCrossLink
commit 2b53b0fb2b9ae66947cf583841f39dee96e13e52
Author: rusconi <rusconi at filo.(none)>
Date: Wed Dec 12 21:32:41 2007 +0100
Addition of the GUI-related files for the CrossLinker stuff mentioned in previous commit
commit e14c8c884ac6d555bf788ffa6c1b49f0f93b6b89
Author: rusconi <rusconi at filo.(none)>
Date: Wed Dec 12 21:31:55 2007 +0100
And now the MxpCrossLinker objects can be defined using the
new GUI design, which is the end of the rewrite of the polymer chemistry definition window
commit 998185cd35510b4464ce1dc72688323213584496
Author: rusconi <rusconi at filo.(none)>
Date: Wed Dec 12 21:30:40 2007 +0100
Added usermanual/massxpert-version.tex to .gitignore as
this file is regenerated upon call to cmake ../massxpert
commit 6bc16e345dab556b45b33d32f4b5118f07961bca
Author: rusconi <rusconi at filo.(none)>
Date: Wed Dec 12 16:09:02 2007 +0100
Fixed bug with conversion from double to int
commit b2d6f496d3bf1f0951eb7b81102ce681626087a3
Author: rusconi <rusconi at filo.(none)>
Date: Mon Dec 10 21:36:13 2007 +0100
Setting up this branch OK for CMake-based debian package creation
with both massxpert and massxpert-doc package creation, in fact
commit 1c275f83e4e2b09c3a31344e55d88f4603fb6b57
Author: rusconi <rusconi at rddm503pfr.mnhn.fr>
Date: Mon Dec 10 16:43:09 2007 +0100
Now the user manual is installed in /usr/share/massxpert-doc/usermanual
as it should be and not /usr/share/massxpert/usermanual, as it is from another debian package than the massxpert package
commit ea4b3556c36303d76f81dec891d36d8c61a3d01c
Author: rusconi <rusconi at rddm503pfr.mnhn.fr>
Date: Mon Dec 10 16:15:14 2007 +0100
Changes to the source tree, mainly maintenance scripts and
user manual stuff aimed at having the documentation (pdf and html) generated during package build
commit 89188efa46e844b26aa748984914707f168fb3b0
Author: rusconi <rusconi at filo.(none)>
Date: Sun Dec 9 20:21:03 2007 +0100
Final modification prior to release 1.6.7
commit 044dfdb8e3357249cab4c84bcfc49ac6e29b26b7
Author: rusconi <rusconi at filo.(none)>
Date: Sun Dec 9 17:20:41 2007 +0100
Well, at this point the package seems convincing.
Remains the configuration of the building of the user manual from within the source
commit 0dc60c780d5e2515f387023c0902053d24b34eb1
Author: rusconi <rusconi at filo.(none)>
Date: Sun Dec 9 12:26:58 2007 +0100
Well, seems that we get correct debian packages now with the
CMake build system
commit 9d8991e55ffd24ae223cea5a2ccaac091878c817
Author: rusconi <rusconi at filo.(none)>
Date: Sun Dec 9 11:46:50 2007 +0100
Another change to go forward
commit 261d869300b3dcbf1a181f9a1cb629abd87301e8
Author: rusconi <rusconi at filo.(none)>
Date: Sun Dec 9 11:32:54 2007 +0100
Still doing some debian-packaging-related cleaning and reordering
commit adb89b93ec68932c816b7b7cead582585cdf02a5
Author: rusconi <rusconi at filo.(none)>
Date: Sat Dec 8 23:46:51 2007 +0100
Still improving project debian-wise
commit 0a50d71053b83767bba92f02814fcb09979b7286
Author: rusconi <rusconi at filo.(none)>
Date: Sat Dec 8 16:40:22 2007 +0100
Updating debian-specific stuff
commit 4b928ceeeb67a76b28cfa56c2d680767d81bc29c
Author: rusconi <rusconi at filo.(none)>
Date: Sat Dec 8 16:08:51 2007 +0100
Preparing debian package for new release
commit bcd16b39b16342c50f11f72d794113e70b1357e8
Author: rusconi <rusconi at filo.(none)>
Date: Sat Dec 8 10:44:21 2007 +0100
Removed licence GPL version 3 file
commit 36a775009f542c0d604f31e5edfa1e0e1f3121bc
Author: rusconi <rusconi at filo.(none)>
Date: Sat Dec 8 10:42:20 2007 +0100
Started doing debian-related and non-debian-related work for release 0.6.7
commit ae29c588e77aea65149cca9c1b97e0d1d02e1919
Author: rusconi <rusconi at filo.(none)>
Date: Thu Dec 6 21:21:12 2007 +0100
Added new debian menu icon
commit 79b459893d234bf2b678b0efba9e8bda0ef7a725
Author: rusconi <rusconi at filo.(none)>
Date: Thu Dec 6 21:20:08 2007 +0100
Fixed debian stuff after CMake'ization
commit 829fe82bcd9e59094b8d046fc4c484275eff5cea
Author: rusconi <rusconi at filo.(none)>
Date: Thu Dec 6 21:18:38 2007 +0100
Fixed script after CMake'ization
commit 2f0253bcc540457f4da7294672e27b7664e7aec8
Author: rusconi <rusconi at filo.(none)>
Date: Thu Dec 6 21:18:16 2007 +0100
Fixed bug with pI calculations
commit 71dcbe0d5baa266cc0661a489d94efe05dc533b8
Author: rusconi <rusconi at rddm503pfr.mnhn.fr>
Date: Wed Dec 5 14:17:18 2007 +0100
Adding missed files at previous commit: well advanced the fragmentation definition according to the new GUI design
commit 4206dd692fd53ee591e90bed88bd1720c91365c0
Author: rusconi <rusconi at rddm503pfr.mnhn.fr>
Date: Wed Dec 5 14:16:41 2007 +0100
Well advanced the fragmentation definition according to the new GUI design
commit 6bde5ac45f3dd7d22dfd5ce33d37261852002827
Author: rusconi <rusconi at rddm503pfr.mnhn.fr>
Date: Wed Dec 5 14:16:08 2007 +0100
Removed debugging messages
commit 880b71443cbf2a9ec4af9fd205270156fd8a8c96
Author: rusconi <rusconi at filo.(none)>
Date: Tue Dec 4 23:27:05 2007 +0100
Probably fixed bug with pKa/pI calculations. See explanations in the code source.
commit ed821b4b15106f65d95395b95e589faa3b5414eb
Author: rusconi <rusconi at rddm503pfr.mnhn.fr>
Date: Tue Dec 4 09:54:08 2007 +0100
updated the DTD-writing function of MxpPolChemDef
commit 0f198f3ec158889b8d11070a04227ee66a908138
Author: rusconi <rusconi at filo.(none)>
Date: Mon Dec 3 23:45:38 2007 +0100
Now the cleavage specifications also have their new
GUI design
commit b4b0049065823c71939a7d126a0f61c91431345f
Author: rusconi <rusconi at filo.(none)>
Date: Mon Dec 3 23:45:06 2007 +0100
Version 3 of protein-1-letter.xml now has <name> as mandatory first of element
child of <clr>
commit 0976d0101312addb806321656069f76839aa74fe
Author: rusconi <rusconi at filo.(none)>
Date: Mon Dec 3 20:54:20 2007 +0100
And now some more bug fixes and the monomer and modif
polymer chemistry definition entities can be defined using the new GUI design.
commit e2ccd267068cd7dabc9a2e7474c35876e91b9717
Author: rusconi <rusconi at rddm503pfr.mnhn.fr>
Date: Mon Dec 3 14:30:48 2007 +0100
If starting pI computations from pH=0, the result is
more reliable. Still have to understand why...
commit 7a9791cc2c1cc3a9b897826f195536bfdb6ddeac
Author: rusconi <rusconi at filo.(none)>
Date: Sun Dec 2 21:06:39 2007 +0100
Well advanced the monomer definition window. Some changes
> in the atom definition window.
commit 0a11fbc228b286ae2ae9950519f080a94dbf0240
Author: rusconi <rusconi at filo.(none)>
Date: Sun Dec 2 17:17:54 2007 +0100
First version of the new atom definition dialog.
commit 173f5b57f91d90f583a94b40b9afa9bf28a0aba9
Author: rusconi <rusconi at filo.(none)>
Date: Sun Dec 2 11:26:53 2007 +0100
Commented the code explaining why the order of removing an item
from the listwidget before removing it from the real isotope list is important to avoid crashes
commit e6ff67864ffb09002cb1718197b882bdc8c474c4
Author: rusconi <rusconi at filo.(none)>
Date: Sun Dec 2 01:02:56 2007 +0100
Well advanced new atom definition dialog implementation
commit 90678e8581ad39cf4b0e9d481216dce5dcca0903
Author: rusconi <rusconi at filo.(none)>
Date: Sun Dec 2 01:02:23 2007 +0100
Bug fixes
commit d52f09ddfe9452d03dbb66dfb513fb29bce554bd
Author: rusconi <rusconi at rddm503pfr.mnhn.fr>
Date: Thu Nov 29 12:35:18 2007 +0100
well advanced definition of crosslinks but found that
the polymer chemistry definition window is really not convenient from a user standpoint. I'll branch the
master into something to rewrite all the GUI code of the polymer chemistry definition window.
commit 0541c1dc9ea87edabbc6e95b503e257d29ccf645
Author: rusconi <rusconi at filo.(none)>
Date: Sat Nov 24 22:20:50 2007 +0100
There might be 0, 1 or more modifname elements inside a MxpCrossLinker element now.
Version of the xml file remains at 3.
commit 5e9c9619833b123852106350f735f57be0503c67
Author: rusconi <rusconi at filo.(none)>
Date: Sat Nov 24 14:39:03 2007 +0100
Removed all helper files for doing the
file name stuff committed earlier. The project compiles fine and seems to run fine
commit c82f3478c48011ea54e65b5db44ac273584596ad
Author: rusconi <rusconi at filo.(none)>
Date: Sat Nov 24 14:09:43 2007 +0100
Switched the whole project to new file naming scheme:
the file containing class MxpClassName is now named MxpClassName.[ch]pp
commit 93448fce22aa2a841199bfc90ef584b1a842bb31
Author: rusconi <rusconi at filo.(none)>
Date: Fri Nov 23 21:29:06 2007 +0100
Update of the CMakeLists.txt files after merge.
The program now compiles correctly with the crossLinking code being apparent
commit d95204c956994ba6d00e71f21f11520e1ebac2c3
Merge: 3ade54914b64275e83150a23ca984a266f7ca5b4 0c6a2c77f0c5fcd5949fea81b8a8416655ef0b39
Author: rusconi <rusconi at filo.(none)>
Date: Fri Nov 23 19:56:44 2007 +0100
trying to finalize the merge
commit 3ade54914b64275e83150a23ca984a266f7ca5b4
Author: rusconi <rusconi at filo.(none)>
Date: Thu Nov 22 23:11:04 2007 +0100
Changed the name of the directory containing the CMake templates.
Added one template file to handle the automatic versioning of the user manual, added one configure rule to the main
CMakeLists.txt file of the project.
commit 8f5056b7beaca325902dfa10fb434c42f9aa2ee0
Author: rusconi <rusconi at filo.(none)>
Date: Wed Nov 21 23:50:00 2007 +0100
And now the program icon shows up in the windows explorer
commit 077be8d58d4404ae4e8db8edbb06565288910f27
Author: rusconi <rusconi at filo.(none)>
Date: Wed Nov 21 20:45:28 2007 +0100
Fixed one glitch with the catalog of polymer chemistry
definition files not being updated to platform-dependent directories. Taken advantage of the modif
to better compartmentalize the template files in the cmakeTemplates directory.
commit 64513bbbc82113ba6deb7fb73d29b4464c51b9ed
Author: rusconi <rusconi at filo.(none)>
Date: Wed Nov 21 20:02:20 2007 +0100
Added this script to remove anything massxpert in /usr/local
commit 8ce539f347b165f7dd01251b947e48239518047d
Author: rusconi <rusconi at filo.(none)>
Date: Wed Nov 21 20:01:36 2007 +0100
At this point the CMakeIzation is completed, unless
for the program icon that does not show up in windows
commit c80833b86df8c3a4a4aaa1b451e7c8598112d095
Author: rusconi <rusconi at filo.(none)>
Date: Wed Nov 21 18:22:21 2007 +0100
And now the plugins with uis is dealt with QT4_WRAP_UI. Also the plugins are built and run ok on windows
commit 8e55d93b13be387757d7ffe8d3e2072760627a46
Author: rusconi <rusconi at filo.(none)>
Date: Wed Nov 21 17:32:20 2007 +0100
And now, uis get uic'ed correctly. Approaching end of "port" to CMake
commit 14fe6b990717be0ea6e28abdb91afa4688532c4d
Author: rusconi <rusconi at filo.(none)>
Date: Wed Nov 21 15:53:10 2007 +0100
Installation works ok on Debian for the userman
commit 79637dcf79862e179f57d0e0db7d1b86c537e0fe
Author: rusconi <rusconi at filo.(none)>
Date: Wed Nov 21 15:40:21 2007 +0100
Installation works ok on Debian for the data
commit e7c9793e553055d1002d396457d76a0593634d85
Author: rusconi <rusconi at filo.(none)>
Date: Wed Nov 21 15:28:22 2007 +0100
Installation works ok on Debian for target, plugins, translations
commit 0086ea1bce218d94bbe84e4d11f41b4dc424c104
Author: rusconi <rusconi at filo.(none)>
Date: Wed Nov 21 14:45:12 2007 +0100
Now the config.h file is rendered correctly using CMake functionality
commit 9f90abb6cb34a45dc16a974564e53cbd5056a44b
Author: rusconi <rusconi at filo.(none)>
Date: Wed Nov 21 12:26:23 2007 +0100
Now compiles on window all the plugins also.
commit 449b38f639107a05eef35f5d373143ba501617b0
Author: rusconi <rusconi at filo.(none)>
Date: Wed Nov 21 11:57:26 2007 +0100
Now compiles on window, with better-crafted INCLUDE_DIRECTORIES and TARGET_LINK_LIBRARIES variables.
commit d05c3df895bb521473562f0ffe3f083ed6da4de3
Author: rusconi <rusconi at filo.(none)>
Date: Tue Nov 20 23:41:48 2007 +0100
First modifications for CMakeIzation... compiles and runs on Debian Testing
commit 0c6a2c77f0c5fcd5949fea81b8a8416655ef0b39
Author: rusconi <rusconi at filo.(none)>
Date: Tue Nov 20 17:04:44 2007 +0100
this is the file that fixes the problem with texlive/tex4ht
commit c1592c5d381efa64cbc4eadab27463a3b47d1046
Author: rusconi <rusconi at filo.(none)>
Date: Tue Nov 20 17:03:41 2007 +0100
cosmetic changed: back with funky itemization ding characters
commit 191dd5349e082c836c75a324a738b4ab826ee1fc
Author: rusconi <rusconi at filo.(none)>
Date: Tue Nov 20 17:02:17 2007 +0100
deleted v3 of GPL
commit e181ff0444fecadcb08b580e66626706fa9cc9f4
Author: rusconi <rusconi at filo.(none)>
Date: Tue Nov 20 17:01:45 2007 +0100
going on with crossLink stuff
commit 009041fa8c26c8856302fbcddf62b5f960a0c315
Author: rusconi <rusconi at filo.(none)>
Date: Tue Nov 20 17:01:09 2007 +0100
some ideas for next big version
commit 1e25160befa30dee3814092685a5fdcd560db5c2
Author: rusconi <rusconi at filo.(none)>
Date: Tue Nov 20 17:00:24 2007 +0100
fix for a bug in the texlive distrib
commit 13dcf5662e4044d9e93afee1c4c619489b6f832e
Author: rusconi <rusconi at filo.(none)>
Date: Wed Nov 7 22:49:35 2007 +0100
Remaining file to be commited after addition to git-managed files.
commit d389ea7c398da63612ce3fedb47ae7fa6881157c
Author: rusconi <rusconi at filo.(none)>
Date: Wed Nov 7 22:48:52 2007 +0100
Implemented the cross-link dialog and connected to the menu
in the sequence editor window
commit 7ebb4e30acd18a9ea72e886bd9ba24d171076b8d
Author: rusconi <rusconi at filo.(none)>
Date: Wed Nov 7 22:47:30 2007 +0100
Integration of the protonloss.svg file in the modification_dictionary
as a file for doing the transparent ProtonLoss modification
commit aeb83154f16445a891fe2fac83b515dc8606967a
Author: rusconi <rusconi at filo.(none)>
Date: Wed Nov 7 22:37:44 2007 +0100
Real sulfide bond cross-link defined, and check of the resulting
polymer chemistry definition file with fixes in the DTD (the version ATTRIBUTE of polchemdefinition)
commit 627bc1de9d259e47f3c73ea1352c89d67977eaf5
Author: rusconi <rusconi at filo.(none)>
Date: Tue Nov 6 22:56:05 2007 +0100
First new version of polymer chemistry definition file
sporting the <crosslinkers> element (with bogus examples). But that file loads and saves correctly
commit 2c26db8fa3b1660b595be617fcf798eeca8e67df
Author: rusconi <rusconi at filo.(none)>
Date: Mon Nov 5 23:12:19 2007 +0100
At this point, a test file with crosslinker data could
loaded/saved in/from the polymer chemistry definition window
commit aca7519cb9d6472a1642eab02a4e7e7662dc4fbc
Author: rusconi <rusconi at rddm503pfr.mnhn.fr>
Date: Mon Nov 5 19:55:57 2007 +0100
Well started the code about the definition of crossLinks in the
polymer chemistry definition window
commit 3c27588e3272d512b08fbeca613bf172dfa18302
Author: rusconi <rusconi at filo.(none)>
Date: Sun Nov 4 11:39:13 2007 +0100
Renamed property () call and other related functions to short prop ()
because of a name class with QObject::property ().
Fixes to the signal/slot system relative to the crossLink feature. The stage is now properly set.
commit 61582c134d68e1f2461a39329d518d22ce04b3ab
Author: rusconi <rusconi at filo.(none)>
Date: Sat Nov 3 18:10:23 2007 +0100
First compiling implementation of the reticulation framework between monomers
in the same polymer sequence. Test in the sequence_editor_wnd.cpp.
commit 50858d826d887d5a92d0ee6eb73bd20caa41628f
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Wed Sep 26 10:32:07 2007 +0200
Last modifs as after release 1.6.6 but that in fact should belong to
that release
commit 419343f27f4e3fe75c1fa2fe1b39efedbab8300f
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Sun Sep 23 15:28:19 2007 +0200
last doc version for release 1.6.6
commit ee6f6a6f351585aa8cb3296fa6a3ef43f4020cf3
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Sun Sep 23 15:27:56 2007 +0200
debian/ directory files modifications for release 1.6.6
commit 2d6ead920350c91918f7f3590931b6a3bb83af95
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Sun Sep 23 11:59:26 2007 +0200
Remove \ from chapter titles as they seemed to confuse tex4ht...
commit 4350adb1b26dfb4c395cd00ac09a4ea58062bdf1
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Sun Sep 23 11:47:56 2007 +0200
Added a sed replace vref with ref during preparation of the tex files
for use with tex4ht, as this varioref command mixed up things and was unncessary in the html format
commit ac5110e07e995be865be19b0af17c6e34b4d9484
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Sat Sep 22 22:45:57 2007 +0200
New version of the user manual
commit f52a6054c8730b5b38b074e693e72d3171ab9029
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Sat Sep 22 22:28:36 2007 +0200
Updated french translation
commit 460bb5b4e6e323b0d46fa68f70e6f47a2e187893
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Sat Sep 22 21:34:06 2007 +0200
Updated the documentation to show the now multi-charged
cleavage and fragmentation oligomers
commit 44b4bd06f34ea28f80275b75f43f3baa601a3c73
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Sat Sep 22 21:33:27 2007 +0200
Fixed reporting of cleave- and fragment-generated oligomers
as text
commit 49a3bf138ea89f2979c22c47a76ad35aff9c7c08
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Sat Sep 22 20:20:19 2007 +0200
Fixed problem with reporting in the last column of the treeview
if a given fragment oligomer was modified or not
commit f186041ea24cbdba1d1d8ced6cc82e79906544bb
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Sat Sep 22 15:13:19 2007 +0200
Fixed ui problem with pH setting. By the way, the spin box is now a DoubleSpinBox
commit 1b0740af8c90ab8b565c2304ffd253496514c2ab
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Sat Sep 22 15:08:23 2007 +0200
Starting preparations for release 1.6.6
commit c0fdfed724e0737b66f45db78337a878a5125f7a
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Sat Sep 22 15:07:53 2007 +0200
Other cosmetic stuff with non-op statements to avoid warnings
commit 6a9ae916c7b42a0b2f3c444c399285ea11716aeb
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Sat Sep 22 14:42:20 2007 +0200
Cosmetic stuff with non-op statements to avoid warnings
commit 082c55b90fbc5c243baa23a7be43c5d55f768b1d
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Fri Sep 21 23:33:10 2007 +0200
The oligomers from cleavage and fragmentation might now be calculated as multi-charged oligomers
Merge branch 'multiChargedCleaveFragmentOligomers'; commit 'HEAD'
commit a43c0a285791d11364afd56f15fb1c97ea984897
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Fri Sep 21 23:29:20 2007 +0200
Finished with the production of multi-charged
fragmentation oligomers
commit a9ba366b7e81238501a96cf5b07ffd02c8ad9f49
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Fri Sep 21 22:14:17 2007 +0200
Well improved the handling of multi-charged
oligomers (cleavage- or fragmentation-based) with the cleavage-based ones being fully implemented
and the fragmentation-based ones having an implementation done for the MXT_FRAG_END_NONE case. All
that work required creating a base class off the pre-existing MxpOligomer class and deriving from it
the MxpCleaveOligomer and MxpFragmentOligomer classes.
commit 3449bef1d22f0d76186b4d6fae39b415581fd8c8
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Tue Sep 18 09:43:14 2007 +0200
Started implementing multiple charge fragments, but stumbled
on the problem of the charge of fragments that cannot be handled like it is handled with cleavage oligomers.
This means that it will be necessary to start doing an abstract MxpOligomer class and to derive from it
MxpCleaveOligomer and MxpFragmentOligomer or something like that so that ionization is handled properly
in each case.
commit 39b0436dcb1a8598264eb8b5adc472cd353ec139
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Tue Sep 18 09:39:58 2007 +0200
added TODO task
commit e9e49efb0d6dfcc18a5d0415f5ffbaf138596b8c
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Tue Sep 18 09:39:22 2007 +0200
Removed unused variable
commit bbec5de8902e7ab2a8e0dc64c8b02f4dc5ad2a2f
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Mon Sep 17 20:58:42 2007 +0200
fixed memory leak
commit 56f394285505c8c544f49d7e242a3bc631efc4ef
Author: Filippo Rusconi <rusconi at filo.(none)>
Date: Mon Sep 17 20:57:41 2007 +0200
fixed unused parameter warning
commit 75140e68cf864f965573043c54bd4aad70b3b731
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Sep 4 22:27:20 2007 +0200
Almost only cosmetic
commit cc7fe92d6bf3552fab8ee2765efa7c45e3d784ff
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Sep 4 22:26:44 2007 +0200
Added two new files for the MxpFragmenter code
commit bd5d6413775e3ff58ca5fa1ce396fae69cfffd4d
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Sep 4 22:25:14 2007 +0200
Implemented the fragmentation stuff in new class MxpFragmenter and
removed the corresponding code from the fragmentation dialog class. Also, made the same use of QList<MxpOligomerList *> *
instead of two nested QList objects as previously performed with the cleavage code in the fragmentation code. Still have
to code the z charge stuff as done previously with cleavage code in the fragmentation code
commit 664fd68ac616b4ff0d1fc4931597783fa9672bf8
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Sep 1 23:48:29 2007 +0200
Cleavage oligomers now show up with their charge in the treeview
and oligomer name is set accordingly
commit bada20db9f30c867251a59a645523ede3ae71f6e
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Sep 1 21:10:15 2007 +0200
Cleavage oligomers now show up with their charge in the treeview
commit 7ec88394dcd70cefad1e296c8488596ef2e29d9a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Sep 1 20:59:59 2007 +0200
Implemented ionization level ranges for oligomers, starting with the cleavage application bits
commit 3d1389faffd2ed90b04dafd200606aef0e1488f4
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Aug 30 14:48:32 2007 +0200
Small improvement in ui
commit ac91daa8c5b5e7e57ba3b74f812a801f4ae349b8
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Aug 29 15:44:05 2007 +0200
Started implementation of oligomer m/z lab (previous commit without effect)
commit 4fbd8038f062b394dc85fd595f2afe0695dbefeb
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Aug 29 15:43:28 2007 +0200
Started implementation of oligomer m/z lab
commit 81e9ba44879abb5d7d2acb1d7f87b273e1083ddd
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Aug 22 20:52:49 2007 +0200
Initial implementation of an SIGNAL/SLOT pair between the MxpPolymer and the MxpOligomerList classes
commit 0ceb870baf4da73b97cb637711112b2130bc7188
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Aug 22 11:52:06 2007 +0200
Reimplemented the gui polymer sequence cleaving stuff to use the modified MxpCleaver object
commit d38541508950d3dfdbdb9fa5308d60fa449c41f9
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Aug 22 11:51:24 2007 +0200
Reimplemented the cleaver object to use the new oligomer list object
commit 4a4f98bda21571cf30c5925a3251a666d8597c8e
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Aug 22 11:50:48 2007 +0200
Implemented and added to library 'list of oligomers' new class: MxpOligomerList
derived from QList<MxpOligomer *>
commit ec039b638881cd869fdde8d539e524f07a848b13
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Aug 22 11:49:07 2007 +0200
Changed names of enums from Mxt... to Mxp...
commit 7e9325a9f12c0adafe3248765f2a4b9201be4ea1
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Aug 20 14:37:16 2007 +0200
Found one last occurrence of the 'version 3' wording; changed to 'version 2'
commit 5318ad613fae13678a3d89180c65a55ff09ff61f
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Aug 20 14:34:43 2007 +0200
Removed massxpert/windows-installer from the path to make tarball
commit c43851e399780b45f3dfa765320278d508302caa
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Aug 20 14:33:23 2007 +0200
last modifs for release 1.6.5
commit f30d6726e76e28ef4b33de5bd2983ce94b5b5c3c
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Aug 19 22:17:25 2007 +0200
Setting the last stuff before 1.6.5
commit 11be4555b0ae250f2155b9c94c2a5cf6f7027746
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Aug 19 20:56:20 2007 +0200
Added version 2 of the GPL to the user manual files
commit 9dd5e942a09e568276b5c9f0bc9d91642675b5b4
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Aug 19 20:55:40 2007 +0200
Added a script
commit 0fb28c7025b4b3d0f2ac2456651b227fe506f72e
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Aug 19 20:54:59 2007 +0200
Updated the documentation about the reversal to version 2 of the GPL
commit 9cf49cc4c8a04702236be548fb797911962394f7
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Aug 19 16:19:34 2007 +0200
Added windows-installer directory to git-managed source stuff
commit ea2b8ea0f147c9e9b58f4ca3f32fc8d3f9cbf9f5
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Aug 19 12:41:22 2007 +0200
Reverted to GPLv2 the text in the about dialog box
commit a1a44a198ebc3e01e359433311a1b3d78dc2337a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Aug 18 20:50:19 2007 +0200
Back to version 2 of the GPL as the Qt libraries are not using the 'version 2 or any later version' wording
commit 303a9c6b852c586af06f6734c67f7b775be03779
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jul 28 21:06:04 2007 +0200
Approaching release version 1.6.5
commit 710348065c1d92d276234600714b08beb18d7944
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jul 28 19:54:15 2007 +0200
Preparing release 1.6.5
commit d87397be588134678e39205567237940ef13c65a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jul 28 19:53:53 2007 +0200
Updated french translation
commit c0e22458c96c158e974982e6379da6510aadfa34
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jul 28 19:53:31 2007 +0200
Updated the documentation with new modification features
commit a48fa87acd7fb092f4834bad026496838f17dd5a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jul 28 16:06:42 2007 +0200
Better feedback messages to statusBar while doing initial sequence drawing
commit 80fda94a93d4314311663b16f4e33d192c9a5b19
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 27 20:03:20 2007 +0200
Implemented the new monomer modification target limitation as far as actual monomer modification is concerned by using the GUI
commit afa3af11ff3553488955d773dc70bf0a901a3b74
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 27 19:42:23 2007 +0200
Fixed bug with creation of default monomer modification vignette and
setting it to the has with a bad key. That would lead to bad reference counting and crashes upon unmodification of more than one
modified monomer
commit fde66a6844f6745db9d183a81de655fe9cef02c7
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 27 13:02:49 2007 +0200
Implemented the new modif's targets stuff in the pol chem def's treeview
commit 64f07df9a356e6063148fa0aef343acc38b0ccaa
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 27 13:01:52 2007 +0200
Fixed not creating versioned polChemDef xml file and bad DTD sent to it
commit c008dc22457d7c6a8314e3f9276ddab53dbd791e
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 27 13:00:36 2007 +0200
improved the formatting of the targets string
commit 003243f2c4ea1bb8b65641f91df75e283d8704f4
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jul 26 23:49:28 2007 +0200
Propagated the new <targets> element and fake atoms in all the
polymer chemistry definition files currently shipped with massXpert
commit acafe062e3930424ee34f16403894cb12d541628
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jul 26 23:25:51 2007 +0200
Added support in the library for defining monomer targets for each modification
in the polymer chemistry definition. That means that now, for each modification being defined, it is possible to limit
the scope of that modification to any number of monomers (as defined using their code). If a modification should only
be applied to a Lys, for example, one would put 'K' in the <targets> element belonging to the <mdf> element. '*' means
that all monomers can be targets for the modification, and '!' means no one monomer might be modified with this
modification.
Added fake single-isotope atoms with masses 0.0 (Nullor/Nul) ; 0.1 (Decilor/Dic) ; 1 (Unitor/Uno)
10 (Decanor/Dac) and 100 (Hector/Hec)
commit 4d244974b8585d67eb9247b5480f13563278612b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jul 26 23:13:40 2007 +0200
Cosmetic report of polChemDef file rendering failure
commit aed814f5dc4dab5a84145cc9d81cd95877736dc9
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jul 26 23:12:35 2007 +0200
Fixed bug with parsing atom symbol with more than two characters
commit 410b2d5b3a5c3303ebcf802ed10501838691f19c
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jul 24 23:10:12 2007 +0200
Finally done all the modifs for the version 1.6.4 release
commit 65274924c7c14421ecc5a884dee8fb91ddb54022
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jul 24 21:17:53 2007 +0200
Added an hpp file to define the default monomer modification vignette
commit 7ff9727aa387c84ee1b16ce808ebfc430bb1c19c
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jul 24 21:16:46 2007 +0200
Fixed a fix, that is removed a hack that was necessary when using
MS-Windows Qt of lower version than GNU/Linux
commit 23fc7262f0cc25375369840f80ec63aefdeb6269
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jul 24 21:15:26 2007 +0200
Added a third possibility with rendering graphically monomer modifications:
The first is the standard one: the modification_dictionary assigns an svg file to a modification name.
The second is that if such assignment does not exist, the default-modif-vignette.svg file is used (if found in the
polymer chemistry data directory).
The third, in case the default-modif-vignette.svg file is not found is to use an svg object rendered from a QByteArray
as defined in the file lib/modification_default_vignette.hpp. This makes the program crash-proof from the perspective of
graphically rendering monomer modifications.
commit 180ba1a0765f173f2fa65ee4ce1636e314afaa0c
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jul 24 18:09:05 2007 +0200
Switching to version 1.6.4, preparing release
commit 5f1e1e570676590702e9041793a2125d0f354f07
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jul 24 18:08:40 2007 +0200
fixed problem with resources on windows
commit e7b2bf4b99c05eca75832b6123147a900ba40e60
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jul 23 22:41:22 2007 +0200
Fixed remaining glitches in the translation and in some ui files
commit 91af1c2bb6d80014aaafc82e8205745b2249119d
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jul 23 21:41:32 2007 +0200
Lowercased all labels from the gui/ui files
commit c014f07610c2f8c8ca665d4bb929dda98a6a946c
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jul 23 21:20:38 2007 +0200
reverted from doing lowercase label stuff from xml files instead of from designer
as this generated bad results.
commit 2f027920e66401a29946333e3e504e9ee7d0e07b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jul 23 16:12:10 2007 +0200
Set up the configuration for use of translations
commit f9cd72b3b71221a6ae19485806a46716ddc4d12a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jul 23 16:11:33 2007 +0200
Removed bad what's this string
commit f4c7b262c6f8d7e8705792a66822d636d68d2ec7
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jul 23 12:53:30 2007 +0200
Well proceeded in the french translation
commit fefe9e6ba6ed0a0215a17fc97f86d1295014c6aa
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Jul 22 18:42:46 2007 +0200
Created french translation file
commit 81f4c27b3abf0857a6de598ee29ee0b937af1065
Merge: c074a26d4a78b4a6736cb0045d693c20d2bcd007 99ea24cb41563c6e4c2d510bb0c9a66dcd339760
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Jul 22 17:27:55 2007 +0200
Started preparing translation stuff
commit c074a26d4a78b4a6736cb0045d693c20d2bcd007
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Jul 22 17:23:54 2007 +0200
All the last modifications prior to starting the translation stuff
commit 9678ab9bab5803b0b1b7d621918158cec6022fdf
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Jul 22 16:47:41 2007 +0200
dying git
commit 99ea24cb41563c6e4c2d510bb0c9a66dcd339760
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Jul 22 15:51:50 2007 +0200
In view of the translation effort, done a survey of all
the messages output to the user in the GUI part of the project. Incidentally cleaned some code, like some
QDir::separator used to replace '/'
commit e5dfcbe9c627e846edbca1056d0dfbdd2b79421f
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jul 21 22:24:23 2007 +0200
Improved the development toolchain, with emphasis on package generation
commit c20559b8b90e9838e330d1b111abc7feb495de84
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jul 21 11:06:03 2007 +0200
improved the User Manual toolchain and added a git-managed copy of the hand-made userman/Makefile
commit 35762d224072162cba6a90ede75e4a5a8b3aa32c
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jul 21 09:57:59 2007 +0200
Trigger recalculation and display of whole/selected sequence
after polymer modification or unmodification
commit ac1df12d3dcbc3ad029e1ccd183e1a1b385481b0
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jul 21 09:56:51 2007 +0200
Revert "Trigger recalculation and display of whole/selected sequence"
so as to enter a better commit message and learn the git-revert
feature.
This reverts commit 0663f6353828718e916db62220179f00fe95b5db.
commit 0663f6353828718e916db62220179f00fe95b5db
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jul 21 09:35:46 2007 +0200
Trigger recalculation and display of whole/selected sequence
commit abcb34c2c5f7f7933c49d2227f53fd2d567e28a3
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 20 22:20:28 2007 +0200
Added possibility to use modifications for which no svg file is available
by using a default modification rendering file default-modif-vignette.svg that's been added to each polymer
chemistry definition currently shipped within massXpert
commit 57dafebd2df6966c7fce681e7f5776f0af4879bf
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 20 22:19:04 2007 +0200
Added two proteinaceous modifications for which no svg file is available
As an example in preparation for that specific case in the sequence editor window
commit 894e8e4e2d77481ffb735bc13f2703389c2228de
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 20 20:11:07 2007 +0200
final debian/changelog prior for version 1.6.3
commit b7a0169990fb8ee73e7106b48eb8f4e8a01fa596
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 20 16:17:41 2007 +0200
cosmetic
commit 2a6d53e9ba2f126a284dc11104789c659a4d3a5a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 20 16:16:26 2007 +0200
fixed bug in MSWindows XP for which modifying a monomer di not trigger
the appearance of the composited modification vignette. Introduced a #ifdef Q_WS_WIN directive for that
specific part of the modification vignette code. Strangely the code is correct when the sequence is loaded from disk.
commit f3795e1517686db89a91fbc51a0a63e8ba06baf6
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jul 19 21:56:50 2007 +0200
Done fixing bugs with vignettes and modification_dictionary entries
commit 71d9eca4e3e906ab308f56c8d5ed4130db333adb
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jul 19 21:46:58 2007 +0200
continuing improving the modification vignettes
commit 9865dcada02bd7df772ac2382d0964de4b83644a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jul 19 21:30:49 2007 +0200
improved vignettes of modifications and added SulfideBond modif
commit aedc461642ece0e2dfff5081e2a8c33c71c70964
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jul 19 21:27:03 2007 +0200
improved vignettes of modifications
commit 4e97446a5a369c97df49681714f5bd68f87212cf
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jul 19 16:27:38 2007 +0200
Fixed bugs due to defining modifications without proper svg vignette files
commit 49b522512dce6e1e89f76184360810ccc314cd6f
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jul 19 16:04:06 2007 +0200
Added biotin-linker modification and modified vignette svg file for methylation
commit 68fe8bf4ac78484305ea0f504c6df94826ffbbdd
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jul 19 15:30:20 2007 +0200
preparing release 1.6.3
commit a73a82642d66f59e3682c3753fe12d31c7769b84
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jul 19 15:29:46 2007 +0200
updated documentation for new polymer modification feature
commit 254b83397ea655f421e19bfe0ada3b7f7ceb76ec
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jul 19 15:21:13 2007 +0200
Fixed bug with SulfideBond modif having no registered svg file
commit 1e60070dfcd975674b80cbe5beffc665d174318d
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Jul 18 20:11:12 2007 +0200
cosmetic
commit a367e5f490f5f34f770293b5d4d014e0c11ed91b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Jul 18 16:44:48 2007 +0200
remove file used by checkinstall
commit 8c05fcbcb95ddfdb5f4818f9dea39b58f944446b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Jul 18 15:56:44 2007 +0200
Fixed glitches with modified monomer vignettes adding twice
the monomer vignette to the scene. This was now detected since a new message alerting the user is emitted by Qt 4.3.0
commit 0b3f3337b092a0a354aa68751c0f7419b4f41936
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Jul 18 15:55:39 2007 +0200
added cscope files to .gitignore
commit 044fdaa8a1c205b91cf6ee780f234da64d24651a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Jul 18 15:12:04 2007 +0200
Improved recorder output in the calculator window recorder
commit de6a9c34bc62ec4a345b3e3243b368a1575e6fbe
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Jul 18 13:50:17 2007 +0200
improved GUI for sequence editor window
commit 4ba5bb8b6baa31ba4c4774ce0256569959de51e0
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Jul 18 11:40:58 2007 +0200
switched to PxmModif as the left/right end modification
and added the possibility to set a polymer sequence left/right end modification arbitrarily to any formula
commit 275c36819e7418512f30ebb9888d4471d09705e3
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jul 17 17:48:56 2007 +0200
added TODO file
commit 731b51a81f83fba6bdaad7e551b4eb9b2bacbd0d
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jul 17 13:53:02 2007 +0200
greatly improved the documentation
commit 4ddbb84c273e7e42fa55489973a33e4711f846e3
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jul 17 12:52:22 2007 +0200
switched back to Computer Modern, other tweaks, not ready for prime-time
commit be6c36b6fcbc31ec0862537b77c2a2c7dea84ee9
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jul 16 12:03:16 2007 +0200
Fixed bug in calculator where the recorder would not report the sequence being calculated for
commit 409fc0c9d06bdb9d5d78fb26934d147bc9188976
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 13 22:05:39 2007 +0200
work on visual output of the pdftex'ing
commit b2fb77121e4c599ec59b22a9d965c08c6d19ea65
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jul 12 23:47:31 2007 +0200
Switched to American Garamond
commit 41e016a671366401411f8e2a2fbcb752bd1048a3
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jul 12 14:28:27 2007 +0200
readying for release 1.6.2
commit e83fb822034c40b8065173db600a83f738324238
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Jul 11 14:28:25 2007 +0200
fixed serious bug due to ionizing the oligomer prior to taking into account
cleavage rules
commit d3ac345014ae98df0f87e05741056a41e958029a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Jul 11 14:22:35 2007 +0200
release 1.6.1 is now prepared
commit 68427620da67e90280bdcbf1e843395b6bb47824
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jul 10 00:02:00 2007 +0200
added a plugin to convert numerals (either single or lists) from one locale to another
commit f544bfdfd1151b602d313009eac901d98092ff94
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jul 10 00:01:28 2007 +0200
added function to set the locale to the mass list
commit d680135ee1c4992922220e6b7b8cf4bc5cce128e
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jul 10 00:00:26 2007 +0200
code cleanup, removed residuals
commit 75600efb6eed75e544c18854119d3561226d5813
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jul 9 22:21:29 2007 +0200
added 'not matched' output to mass list lab matching work and QLocale stuff and code cleanup
commit a3e47d7b0a3f8c50d86345d191348aabe1fb8a74
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jul 9 19:20:06 2007 +0200
started concentrating on locale problems with all the textual data generated
from double mass values. This is crucial for interoperability between programs.
commit ca233290245fbc2a207651e217767f0ce4fa7aeb
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jul 9 18:04:45 2007 +0200
well implemented the mass list lab feature along with an export to the clipboard of
all the monoisotopic/average masses (as a mass list) from the results from sequence cleavage, oligomer fragmentation and mass search
commit dc922c1be8c7fca530bac962e0d961f7bfd4424e
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jul 9 18:03:14 2007 +0200
added FEEDBACK #define variable for pinging the massxpert.org website
commit 9ebc5102fbb960d238bb14e5f328b9d0d7e4d38b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Jul 8 20:40:10 2007 +0200
implemented first features of the mass list lab
commit 3f5600ee321ded51b01e354e8434a8c1bdd60b0a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Jul 8 20:39:43 2007 +0200
improved the configuration of the package and the way the feedback is performed on massxpert.org
commit e524f5cf7a6306dcec4b544831c47ef9d784a684
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Jul 8 20:39:30 2007 +0200
improved the configuration of the package and the way the feedback is performed on massxpert.org
commit bdb310d1106352223dc75b58d4ec17a32d38a646
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 6 23:09:42 2007 +0200
fixed bug
commit 02e436c480d52b6e913443881d6564d102a9468b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 6 18:16:16 2007 +0200
well started implementation of the mass list lab feature
commit 69aa43e518d76ab97019f83a55146c38fe2e951b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 6 18:15:39 2007 +0200
cleanup code
commit e4f190dbd940929a52edaef5fdd28613dd9fab42
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 6 18:15:03 2007 +0200
added utility functions as needed elsewhere
commit 6594beeda900a8d2d5c71129aef6859afa3210c0
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 6 11:16:28 2007 +0200
modified .gitignore
commit 2fd7878a201719ea7670798a16cbbcbe83d2dc30
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 6 11:15:48 2007 +0200
updated plugin-loading stuff to accomodate new mass list sorter plugin
commit d9007bc9b15820585d88404a47628db3ec81947f
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 6 11:14:57 2007 +0200
cosmetic
commit 47c11f973691eee8105954cd79f6dc3e0a1e25d2
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 6 11:14:33 2007 +0200
added mass list sorter plugin
commit 1a7985c8fddc1cd599b565427449d4708a3aa161
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jul 6 11:13:51 2007 +0200
added a new class to handle switching from textual mass lists to numerical QLists of double back an forth
commit 77ec4b9031d51eea9f2c6f375f47c61d4da5c903
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jul 3 21:25:55 2007 +0200
still improving the Debian packaging handling.
Now the source tree is packaged as a binary package (massxpert) and as the documentation (Userman, massxpert-doc) package.
commit 0732bc3fa30d063e030c5cbe49f52cb60d73927b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jul 2 23:37:29 2007 +0200
still besting the debian package-directing directory
commit 7ce3dc61e1ba1e441740b72b9f4671af08089eb7
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jul 2 22:52:39 2007 +0200
still improving Debian packaging
commit 20ece80926ca8552e7a0a7a2fa4a881748c0d300
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jul 2 22:49:07 2007 +0200
cosmetic in gui/gui.pro
commit 656e0d4afa8b33a9c0595c45ec815cf84da82dce
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jul 2 22:47:24 2007 +0200
changed the way plugins are installed
commit feca280b2b217cfa4da2e8ab0065e9a0a3dfd4bb
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jul 2 22:42:40 2007 +0200
added the debian directory to prepare a single big Debian package
commit d41a47d1c2f9f23e26f4d2372b07b2962af4f5be
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jul 2 17:02:31 2007 +0200
fixed Version 2 to Version 3 in the blurb output upon execution
commit 79ecf8fbb85afd488418369b347c9640d73744c9
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Jul 1 18:46:44 2007 +0200
removed ChangLog that I do not use, actually
commit f2f6cc1b7932208163f0d7c61eab62bdd08258c7
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jun 30 21:52:07 2007 +0200
updated doc for GPL version upgrade
commit a33d05949e67907f4ddd6665dc785f19ede5083c
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jun 30 21:11:25 2007 +0200
Change to GPL version 3
commit 9b25ba4f1c649d7bdb8cd5145acb77014d124d52
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jun 30 21:09:51 2007 +0200
added description-pak config file for checkinstall-based debian package creation
commit dd027131851756a33e6f1a242bcf3013b7708e4e
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Jun 27 18:12:03 2007 +0200
small fix
commit b725caea1cc146a963031a4f0f7d95304e552a4d
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Jun 27 14:28:25 2007 +0200
improved documentation for the user manual
commit 192b29f2362d4e3451e9e5cbf832952966801cbb
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jun 26 23:16:30 2007 +0200
removed debugging messages
commit 7f29d25e5f95bd492085f8a4aac89dc68ddb439b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jun 26 21:32:00 2007 +0200
continued writing the user manual
commit bd689710c3fb6fdb4dd2c41151f1477ef92c0532
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jun 26 21:30:56 2007 +0200
removed references to png files
commit be3a3c174657d3ebbad78d657ff19903f479863c
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jun 26 21:30:22 2007 +0200
fixed numerous problems with the svg files for saccharide
commit 11c524c80f9989163830e576278a226bd25d3518
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jun 26 20:03:50 2007 +0200
added missing cursor.svg file to saccharide pol chem def
commit ab04a569cc1ce36d8e54b9210ae32ab6f2286355
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jun 26 17:36:44 2007 +0200
removed all the references to png files in the dictionaries
commit 8f221c6ef551db03b0d76ef16f7c94ea14fad94f
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jun 26 13:04:09 2007 +0200
fixed problem with creation of .massxpert files under MS-Windows
commit bcb347a3b49d435bfaa43adfe527a1b0d7ad2f08
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jun 26 13:03:42 2007 +0200
cosmetic
commit 46a3a24eec56765c61df03a8ce2ecad919ebbdfa
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jun 26 10:52:29 2007 +0200
better definition of layout in sequence editor window
commit f9112a8bf071489ec96ff2f8a5a03dc1febec29f
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jun 26 10:51:54 2007 +0200
cosmetic
commit b0eaee8798129c72ad1a554b8a6c76991c33ef7a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jun 25 23:44:48 2007 +0200
removed non-useful directories for search path
commit 03fb2a644b00fb0bcada443a5cb8207175a3ee83
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jun 25 23:23:27 2007 +0200
cosmetic
commit 34c36ce7bdb0f7d4e6466dd4d5160ce104ecb626
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jun 25 23:23:11 2007 +0200
fixed bug due to freeing a polymer chemistry definition but not removing it from the repository list
commit b6effef8581b847e27b53ae2144f7ad2a697640c
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jun 25 23:20:34 2007 +0200
added mp_repositoryList member to MxpPolChemDef
so that now the polymer chemistry definition auto-removes itself from that repository list when its refCount goes to 0
commit df34fdafd2d301454ed01392c20971796cba312e
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jun 25 22:38:59 2007 +0200
Continued working on User Manual
commit 448be61127a0e51216a50a52f70262f233da27c2
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jun 25 22:37:50 2007 +0200
fixed problem with progressBar in sequence editor window
commit a9048b29aeb2c6b5fb0259b770ca36227d765459
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jun 23 22:33:13 2007 +0200
removed old tla-arch stuff
commit 36c81bfa42e5448e330e1dcd4c2356e413daf418
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jun 23 22:32:54 2007 +0200
User manual: changed permissions on windows screenshot png files and cosmetic changes in doc
commit a534350e6d7d77d7912e3257d212cce77cff62ce
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jun 23 22:31:23 2007 +0200
Greatly improved automaticity of HTML documentation
commit ecdca906fde2fdd1efd3df7d716ed05f32e9386a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jun 23 20:50:13 2007 +0200
new file dealing with automatic VERSION updating
commit 9936e9b56ad8ebee0eb40db748fc393234f79ed6
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jun 23 20:49:03 2007 +0200
documentation updates along with automatic VERSION updating with script in massxpert.pro
commit c6ac13924c25b6b9dbe595e8b050962927c1f95c
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jun 23 20:47:44 2007 +0200
cosmetic ui change
commit b86c8c2a30b71660ba506093bf2bedc82f095647
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jun 23 20:46:45 2007 +0200
changed configuration stuff for new version
commit 2e4ca396d575ccfe0c1228c99449f014a678d865
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jun 23 20:45:49 2007 +0200
fixed windows bug with username setting -which does not work
on windows easily, so left alone for the moment
commit e429e5738e42fb5bfe7789be98f6cc10f69f6825
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jun 23 20:44:45 2007 +0200
changed configuration stuff for new version
commit c6b15020c62da8b206cdf76e18c9d3a754774464
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jun 23 20:43:39 2007 +0200
added ignore statement: gui/massxpert-1*
commit fda2c3a28c19e70f33932588895ecf557c611394
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Jun 20 23:05:09 2007 +0200
removed debugging output
commit 8a348a9e8a7ab3e890f1a649228e72f106337cc3
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Jun 20 23:04:51 2007 +0200
fixed bug with cleavage rule accounting in cleaver.cpp
and added utility function to oligomer.hpp
commit 66ce5dcd455e9fc9627f611e5128619ceb564be2
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jun 19 22:18:53 2007 +0200
Continued writing user manual. Finished first version xpertedit chapter
commit b96ab8aa86f52e14f09c3575e4d314a2dbc7062e
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jun 19 20:08:07 2007 +0200
fixed gui glitches
commit ac3970996a798bc66d60bbe11abee70afa701428
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jun 19 19:08:42 2007 +0200
removed unsued messages text edit widget
commit b9996d055fba2bb35669baada84c52494453d5b7
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jun 19 19:08:20 2007 +0200
tabbing order in window
commit ace5c4f0b7ce7a675eb5e71d83746e8518cb4a0c
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jun 19 19:07:29 2007 +0200
remove debug message
commit e2b4178232062f50a24edec6555d2bd0dcc66853
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jun 18 23:13:09 2007 +0200
continued writing the user manual
commit 1d4537271d3305717d520e9cb70d226069d8bf22
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Jun 17 20:56:02 2007 +0200
documentation progress
commit 2bd11833670c90e62c858e944b6205abe30ed12d
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Jun 17 19:01:23 2007 +0200
improved configuration for the documentation
commit a3a45d4b8755cc52177ee0a56a8542d4e3d35b90
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Jun 17 19:00:59 2007 +0200
fixed serious bug with m_columns being not initialized
in the sequence editor graphics view, and when it was with value 0, floating point error because
the m_columns variable was the fractional denominator
commit 5c6b90d971c3cf86bb21b71459ffb3e267e242fc
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Jun 17 12:36:09 2007 +0200
updated the user manual
commit 39e1baaf1dafa323fcc44fd0201dc3162323dd93
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Jun 17 12:34:46 2007 +0200
fixed small bug not displaying the polymer chemistry definition
commit 1068d83be6aa286a397add246422b3d06548bb38
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jun 16 23:25:41 2007 +0200
improved error reporting upon definitions checking
commit 956c3b63695a9e274133501f1ef82ccf5e5258fa
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jun 11 22:35:47 2007 +0200
improving the handling of the user manual
commit 1198937bc10875cc51314d48a5165cd2f55e283d
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jun 11 22:07:38 2007 +0200
improving the handling of the user manual
commit 6a60417459cdabbe7116c41efc981a59b48c039f
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jun 11 22:06:46 2007 +0200
improving the handling of the user manual
commit 1b0c8fbe540151bf9d2b2ac07a4b87339353de90
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jun 11 22:06:23 2007 +0200
improving the handling of the user manual
commit af654b1563748d43c66aa209c4577d560d6a21c0
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jun 11 21:30:01 2007 +0200
Started adding support for the user manual (html and pdf forms)
commit a1608ea67147a66b147d2fe49e7725dc8b8e45c6
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Jun 10 11:42:39 2007 +0200
remove assistantclient from project and updated config data
commit c8da6774eae6e6780658ba0fe48b320b0cc0580d
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jun 8 22:34:10 2007 +0200
added export data to mass search dialog and fixed minor stuff
commit 4e37d8e2a4e08d144a85f68a0025fba1fcd0c6ed
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jun 7 22:36:38 2007 +0200
added export of data for cleavage data
commit 0778407f34d104b9b975003dd1d00d850fef14c7
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jun 7 22:36:13 2007 +0200
improve data export
commit 2a5dc57659731d335108e0283e27e95052c7b1f7
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jun 7 22:30:22 2007 +0200
improve data export
commit a76b3615943e9227fc721f4633b72c1ea68b5864
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Jun 7 09:14:27 2007 +0200
cosmetic
commit 5ef2e062c2925f01cfcf0164cf843a844b4ad6ac
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Jun 6 18:15:50 2007 +0200
fixed bug in report of selection region in export data in seq edit wnd
commit d4773950ab09e98fa8f68a4232bf11f2170d378f
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Jun 6 15:07:40 2007 +0200
fix with updating the sequence when cutting a sequence portion
commit 17ff2fd45baac797391aa9770eca0c8d9eefa088
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Jun 6 14:13:59 2007 +0200
code cleanup and added data export to sequence editor wnd
commit 0b3c3ae0f2234391f0631511c1e9e16aa2fdad78
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Jun 5 22:35:32 2007 +0200
fixed small bug in making monomer text in sequence.cpp
commit 69cf064eee6d0d7f37f9da5b9db1cdeb10fccceb
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jun 4 23:36:15 2007 +0200
bunch of bug fixes
commit 4451a4155915cdc8f4351b791a13748907f1a786
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Jun 4 23:35:10 2007 +0200
added function to access pH and removed debugging messages
commit 21b19246b90372cc48449def9edee62745f4b2a1
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Jun 3 16:49:04 2007 +0200
added export of results
commit 1336cea4e91fb1af6fcb32d39c28fba521840583
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Jun 3 16:48:46 2007 +0200
remove debug messages
commit 56aa33bf69ed0d3378c6a37390a9802666ec76f4
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jun 2 00:09:09 2007 +0200
export of data from pka_ph_pi_dlg
commit 733db6865a9c599d412002c11446b9ab4c8d319e
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Jun 2 00:08:46 2007 +0200
added the const in QString *makeMonomerText (int, int, bool) const;
commit 5d2b1f1ca56f72982e89457b6b160a18aea53d43
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jun 1 18:33:07 2007 +0200
change to directory for the code doc generation
commit 93a768207d6a225fc3b64b518fa83aa82cc77e83
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Jun 1 18:32:40 2007 +0200
cosmetic doc changes
commit 4d8d71d0c5d1ff3ec22baa13adf64a6978ffb776
Author: Filippo Rusconi <rusconi at juki.(none)>
Date: Sun May 27 20:23:49 2007 +0200
added image with addresses for the website
commit 5adfd24b108dcd0067a727d8a21b48aeaabe09b3
Author: Filippo Rusconi <rusconi at juki.(none)>
Date: Sun May 27 16:55:58 2007 +0200
code cleanup and documentation
commit 9b8e15865724c8fc044814205f43f906a0308dd9
Author: Filippo Rusconi <rusconi at juki.(none)>
Date: Sun May 27 12:05:53 2007 +0200
code cleanup and documentation
commit 922fafdfcdeab63c75bb3ed25d67d5698a623a0a
Author: Filippo Rusconi <rusconi at juki.(none)>
Date: Sat May 26 20:27:03 2007 +0200
code cleanup
commit 04a0b359961bdfb486ad69cff465a40c63d32a85
Author: Filippo Rusconi <rusconi at juki.(none)>
Date: Sat May 26 11:48:16 2007 +0200
code cleanup within MxpPonderable
commit a6bbc77e3110e5cfd70deea6d9e6913106c0a68e
Author: Filippo Rusconi <rusconi at juki.(none)>
Date: Fri May 25 21:19:33 2007 +0200
improved logo svg file
commit 6ddec04508d1fc645a2e298ea58cf7d0686d2bdf
Author: Filippo Rusconi <rusconi at juki.(none)>
Date: Fri May 25 20:56:08 2007 +0200
improved logo svg file
commit a325347362f65c6856966c3e785ae9212d6f2bf1
Author: Filippo Rusconi <rusconi at juki.(none)>
Date: Fri May 25 20:41:02 2007 +0200
added new massxpert log svg file
commit 75c553fffe5ac9f2c84e8200d4832cfb8bd6aa47
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu May 24 22:27:57 2007 +0200
added saccharide polymer chemistry definition
commit 1a96d9c1b38bd82d6ea5f2240d635b15b9a62de8
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu May 24 22:26:27 2007 +0200
code cleanup
commit 30266d5330b0aac77154097fc8f1996f6814d620
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu May 24 22:26:10 2007 +0200
improve error reports from calculator when no chemical pad conf file is found
commit 84ac4f2d3fe8595bbcf62adbfd5c72bd8232cfb2
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu May 24 21:33:24 2007 +0200
fixed a badly placed <comment> element
commit 8f3f7d0183345cc30f94218153ad0c8fcc58553d
Merge: aa617a8af8047c1807342fd57e8f9a914570f6fb 483df430fcac671cbc6b4d1a6f8f9b3639907d6b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu May 24 18:02:21 2007 +0200
Merge branch 'master' of filipo at filomace.org:public_html/massxpert-git
commit 483df430fcac671cbc6b4d1a6f8f9b3639907d6b
Author: Filippo Rusconi <rusconi at juki.(none)>
Date: Wed May 23 23:42:15 2007 +0200
changed catalogue
commit 517295e6885c13fcc839a6e468677b95e52bb8ba
Author: Filippo Rusconi <rusconi at juki.(none)>
Date: Wed May 23 23:38:44 2007 +0200
started addition of dna polchemdef
commit aa617a8af8047c1807342fd57e8f9a914570f6fb
Merge: 8d6b127c8710919a1046c3d86da571ff5a1d521a a6d5594ffa95f8386b818d5354140d84aa42fadb
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue May 22 21:28:06 2007 +0200
bunch of useful tweaks
commit 8d6b127c8710919a1046c3d86da571ff5a1d521a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue May 22 21:26:43 2007 +0200
windows-related config
commit a6d5594ffa95f8386b818d5354140d84aa42fadb
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon May 21 22:31:39 2007 +0200
debug stuff removed
commit 1714d49a7f5e27176c8af01324ebd509b8d9dff1
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon May 21 21:56:37 2007 +0200
added "edit/select all" Ctrl+A and "edit/cut" Ctrl+X to sequence editor window
commit 91b79c32b7c1057ed52ef29e25bc35ccf528566b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon May 21 21:19:47 2007 +0200
commented off a bunch of qDebug () calls not needed for the moment
commit bc23ac649946e0c4be222e4537d7eae270f485c4
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon May 21 21:00:58 2007 +0200
switched to allocated graphics view and graphics scene, so as to be able
to call delete on them orderly when the sequence editor window is destroyed. See previous commit for an explanation
commit 3b72de50c973f03eafdf6b25c67e8ecf882e3f69
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon May 21 20:45:27 2007 +0200
added debugging code and improved the vignette renderer memory handling
But this has created a problem : when the sequence editor window is destroyed, the polymer sequence gets destroyed
which triggers the unrefing of the polChemDef, with immediate destruction of the renderers stored in the QHash.
But right after this the sequence editor graphics view (and its related scene) get destroyed with a second destruction of all
the renderers : crash.
commit 1c3999c248888c6d14687174be7c9e49cf48c245
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon May 21 20:40:34 2007 +0200
changed pka values for two chemical groups of modif phosphorylation
commit eff4e83df5fe6f3a53849f207f7d36e2d1ae4eff
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon May 21 16:58:11 2007 +0200
small fix in the sequence editor wnd status bar
commit ffbf740dd6a51711e616f0e0a441a24ad3b81ec6
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon May 21 14:36:50 2007 +0200
fixed bug with xml file rendering and monomer modif accounting
during the pI and net charge calculations (not taking into account all of the chemical groups contained in a
modification, like for example returning after the pka~12 of a phosphoryl group, leaving the pka~7 un-dealt with
commit a5d49a36e8ee70cdf6b7e0fbdb0302ed71076760
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon May 21 13:10:15 2007 +0200
Fixed glitch of modif svg not showing when modifying a **selected** monomer
It was a matter of calling update on the right scene rectangle (the enclosing monomer) and of setting correctly Z values
for the different graphics items in play
commit 055d6e5aa824b6ebaad94872bf72c33227d4dd6a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun May 20 20:33:46 2007 +0200
fixed bug with accounting modifications
commit 0fdec0e935c9c90c0acdd6a7624f53cca128cd0f
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun May 20 20:33:25 2007 +0200
acetylated N-terminus
commit 522274276457ee15685598eb9ffd3c0127303934
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun May 20 19:26:48 2007 +0200
improved the pI and net charge calculations. Not finished, though
commit 6537a5aa700375a491d54a48c24eb9bfe04f4355
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun May 20 19:25:51 2007 +0200
int size (); becomes int size () const;
commit 85c8d76a6060680a12b724e49ce06e4e6eada44d
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun May 20 17:20:51 2007 +0200
switched back to debug config mode
commit d6f26298f3d078f27f00d4f48f04b128018e0993
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun May 20 11:55:51 2007 +0200
started integration of lib/gui stuff for pKa pH pI stuff
commit ca8a609159cd363a0428d1d1415658f9a31854eb
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat May 19 23:42:52 2007 +0200
well advanced pka ph pi stuff
commit 8a929c3c547ac8fa5d9e3f81cd669baeac692281
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat May 19 23:42:28 2007 +0200
code cleanup aroung monomer modifications
commit 2b347be6f0ae70dd79a6b9c809a8c272e3f23b28
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri May 18 22:59:39 2007 +0200
started implementing pKa / pH / pI stuff
commit 5408523d724d8479e7259e6dfd2dc59d7df3c26f
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri May 18 17:11:50 2007 +0200
implemented rendering of acidobasic data file, forgot to add two files
commit 889cd27e72016595218f41418f7434ffc29ad779
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri May 18 17:11:15 2007 +0200
implemented rendering of acidobasic data file
commit de83738c4de28cd1db05e1e895e6ac0a6d844147
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri May 18 12:12:11 2007 +0200
removed zombie propHash () prototype
commit fc587152b26a453e9cd91d31f2623bd4d6da6a01
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu May 17 14:45:43 2007 +0200
added chemical_group_rule.[hc]pp to lib/lib.pro
commit c9f14bdf421fc0fe27ba7abf68985c5786b42d84
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu May 17 13:30:02 2007 +0200
started implementation of acidobasic stuff
commit 5b437ed0792b3ef5d3c337fd7bed4cbb00334e34
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue May 15 21:52:08 2007 +0200
added a window title to main window
commit 6ebbe9d93ffdbd7bfa83941003eba509eec5310d
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue May 15 16:30:54 2007 +0200
fixed some output inconsistencies
Now the feature has gained reasonable stability and functionality
commit 831ec335f05630d36bf518dae34163c8af4634a3
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue May 15 14:47:09 2007 +0200
fixes in the results processing of the isotopic calculation.
along with cosmetic changes to the output of these in the dialog box
commit 97f432334f582d152ec5f9c202102bd73a50f0ae
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon May 14 19:16:21 2007 +0200
fixed problems with locale and precision in number output
The point was that 'g', 9 was used instead of 'f', 9 (for float, 9 decimals after the point. See the
QString QString::arg ( double a, int fieldWidth = 0, char format = 'g', int precision = -1, const QChar & fillChar = QLatin1Char( ' ' ) ) const
commit 95cb8996dae170c9ee8ad38c2fcad1fa952f31ac
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon May 14 18:57:52 2007 +0200
fixed problem with file output and problems with locale and precision in number output
commit c075746f96db619ef8cb8b6356be8c669ea00f86
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon May 14 17:29:38 2007 +0200
added data output to a file facility
commit 51eb78fab56ca2932d89d74e532f1e126232a651
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon May 14 13:20:44 2007 +0200
added code to compute the calculation time
commit 51a58c20328a13002168fd04bf48405cd43e898b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon May 14 12:56:53 2007 +0200
fixed bug with abortion in the calculation loop
commit 270bb264cdecf7fc8ea389eb876e7e166ceed286
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon May 14 12:07:42 2007 +0200
code cleanup
commit 2541d200b6d969091589ea0b58d8102e166288ba
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon May 14 11:58:09 2007 +0200
fixed bug in the summarizing of peak and now computes the whole gaussian spectrum for a given isotopic pattern
commit 11cd85ae24b1944c52cf2ee3c1aaa506422207d5
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun May 13 18:19:08 2007 +0200
added a new class : MxpIsotopicPeak
in order to ease the handling of isotopic pattern calculation data
commit 5ab09ef1fceb4312ffdf7c4c6a94efb78dfd67d8
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun May 13 15:57:45 2007 +0200
now takes analyte charge into account
commit 1aed2e0a6a1ea546e8f7564f486e9731df912789
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun May 13 10:27:15 2007 +0200
added files pertaining to isotopic pattern calculation
commit fae484559c12a5e3cb550bbadd9d102e4898f187
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat May 12 12:47:53 2007 +0200
Ported isotopic pic calculation from Dirk Nolting's ipc program
Still work to do to print the results, but overall seems to work ok.
commit d3158545162222dadc83391d5b7a697bedfd5ae0
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri May 11 10:02:31 2007 +0200
added inc/dec rement abundance function to isotope classlib/isotope.hpp
commit afd78a50c0fe13352c020fc21eaae34a1eb618fd
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu May 10 21:32:00 2007 +0200
fixed bug with sorting of isotopes
commit 1cad310e52df76ec79be08d5575b546fef3b08c6
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu May 10 13:17:41 2007 +0200
added helper function to append/removeAt/inserAt isotopes in the list of isotopes
so that it is not required anymore to get the pointer to the isotopeList anymore (but a simple reference)
commit f5f2a5c71c382bb14f2124975f1d1cc7e44592b5
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu May 10 12:50:23 2007 +0200
added a sorting operation for all the isotopes once the
rendering from XML file is finished. Sorting is according increasing mass order
commit ebd755d0675d046b673cd964dd3577afa01acc4a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon May 7 21:53:19 2007 +0200
added two params to MxpFormula::validate
in order to be able to store the MxpAtomCount objects and to reset the list of such objects
commit fc934f641e48401fc311a87f37dcea99dada45ab
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun May 6 21:49:46 2007 +0200
improved feedback is user manual is not found
commit c9f9450069bc80fcd1c988c09ced878ff418400f
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun May 6 21:49:04 2007 +0200
now ping is to http://www.massxpert.org/varia/feedback/
commit 4174a4e1470faf7318273368df2f532c3c9f4bda
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun May 6 15:29:48 2007 +0200
started implementing the user manual as QAssistantClient
commit 0edb6188e2268447268482ca8f675e5d92c24ae4
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun May 6 15:28:41 2007 +0200
started implementing usage ping
commit 6ad9e67fe9fdecda1fa247e46441c3694ebef199
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu May 3 21:09:36 2007 +0200
removed the CMakeLists.txt files as QMake now is working perfectly
commit 3e59de0473998b4fb5c6ca456fd76f8a780cf23e
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu May 3 19:09:48 2007 +0200
trim lines from files using trimmed () from QString
commit 9ac3d636d5b0bc15df0068060e4af649861feca7
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Apr 30 23:31:35 2007 +0200
tweaking qmake config to build and install everything correctly
commit 0df94f80878d6dae688d4986f3d691b6b293edb7
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Apr 30 21:57:21 2007 +0200
well done with qmake config linux/winXP
commit 8d4ee7449139546e53c92210f7b5aa3508de5d50
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Apr 30 15:59:57 2007 +0200
well gone into the qmake config
commit 36264d8f70ca45e8245ff789f55ce749d15b3214
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Apr 29 14:29:15 2007 +0200
update of make config files.
CMake-based build on windows produces faulty executable
commit f73b4ab21b100f40ad1bdd0f08ff6a920a9d14f0
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Apr 28 11:27:46 2007 +0200
copied to the data directory all the svg files from the polymer chemistry definitions
commit 177a73e72bc8efab40a2265f2d680c7438f226ee
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Apr 28 10:39:52 2007 +0200
restructured plugin directory setup. Now everything works. Removed windows-installer directory
commit a5c9afc08a09931bdfddfc67e2bbefe31d5d9410
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 27 00:05:24 2007 +0200
well improved the sequence manipulation tools plugin with dictionary handling
commit 4ebb2244694ef2db092b908c54dd3858ec2433cd
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 27 00:00:02 2007 +0200
cosmetic
commit e6c304e9515e10193b598c50a6027a78cbf8cc0b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Apr 24 21:03:35 2007 +0200
Set infrastructure for plugins, more test code, works fine
commit 84cf25d4f4c00bcd872544bb71d7c5c55f172bcc
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Apr 24 20:40:22 2007 +0200
Set infrastructure for plugins, more test code
commit 6f2c18ed5419fbd5a85cf39f616f214bd3001869
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Apr 24 20:35:28 2007 +0200
Set infrastructure for plugins
commit c5219a352ae54e6193d470a28f1b01e2e4639e43
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Apr 24 15:02:25 2007 +0200
added focus in / focus out to sequence editor window
commit 1e4571ece3d2b1c16a767de6a6d35e986c939ab7
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Apr 24 15:01:07 2007 +0200
added focus in / focus out to sequence editor window
commit fa525ddb3bc7e171a2c2c2e43674fb7655c4b2db
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Apr 23 17:38:06 2007 +0200
changed from QMxp to Mxp
commit 63df57bfcd08af57b3a69571e0116d3c7d469620
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Apr 23 17:27:20 2007 +0200
round of code cleanup in base classes
commit d2ab6fc1538631bf2842c72411042a12d2fdb2eb
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Apr 23 11:49:57 2007 +0200
added windows installer stuff
commit bfd7cda8692f2ec813289e7c9c77c4948a9b3729
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Apr 21 20:47:53 2007 +0200
added small version of splashscreen for innosetup
commit e6f273988f88135227f8169e62c6b4622deb39bb
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Apr 21 19:03:14 2007 +0200
added license file
commit 2ef653a3bdc592cc12288e20b34f8fa61a5bd9b1
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Apr 21 14:35:23 2007 +0200
windows ICO is now correct in Win Explorer
commit e8ea424d27f59cb8a33d03e784f05db2373a80c4
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Apr 21 10:52:26 2007 +0200
added stuff for the MS-windows icon
commit e50974160ea1cce297cc0b62749c941b8ad03f74
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Apr 21 10:23:21 2007 +0200
added frog icon for all windows
commit d03a4dfc1d23d7019320e0a6975c849938bc8101
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 20 21:48:53 2007 +0200
improved the splashscreen and about dialog
commit 02a26108af10680c2e83f43b0d298742f30d10c6
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 20 20:28:44 2007 +0200
code cleanup
commit d13e5f2af751042040700fae15526d5da5c800dc
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 20 18:40:44 2007 +0200
cosmetic
commit c6a38136b24abcbdbd9ea2ff6c2ab17b6a2d4f34
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 20 18:34:14 2007 +0200
added splashscreen
commit b1d72b37bef5a870d10806be03975128eaadf8db
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 20 15:15:02 2007 +0200
added progress bar to status bar of sequence editor window
so that visual feedback is given of the progress the vignette rendering
commit 5026d8ddd25fbf7195a9fc0d1b2439624733358a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 20 14:12:15 2007 +0200
added monomeric and elemental compositions
commit 5f49a47732282b9bbdbcbbde85ea625eb94a5238
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 20 14:11:48 2007 +0200
changed masslib to lib and massgui to gui
commit 39acf4861f86741730d183882f24e714f030f1dc
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 20 14:11:15 2007 +0200
added centrin 2 human sequence
commit ef606b2f0a5919536855b5b4afe511bf3cb2e4bd
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 20 14:06:45 2007 +0200
added function to return pointer to modif from a given name
commit f44c9b3c44b52b454b0a6afb8f86dba3af9362dd
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 20 14:06:23 2007 +0200
added function to return pointer to modif, if any
commit 0ffc325d401af4adc6989d0c35b9e635e22c5c5b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 20 14:03:34 2007 +0200
added infrascture to account for atoms, and not masses
That is to account for a formula in the form of elemental formula
commit 73098a0184421bd217848e6661314ca2e070b82c
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Apr 19 23:13:26 2007 +0200
fixed bug with return value of property ()
commit f7f81203445339d7d722b30d2d7e1161440ea924
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Apr 19 09:09:47 2007 +0200
finished move to lib and gui
commit 02b383f23f10e2c7397fc868db87213f6582b98d
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Apr 19 08:37:13 2007 +0200
moved masslib to lib and massgui to gui; designed dialog for compositions
commit 7ab8397288a4757bb33602e4c9f335c4dbf5e3ac
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Apr 18 22:43:44 2007 +0200
removed traces of Xtreme in the mainwindow menus
commit 8ce922929455466227e14fc703618d421f5076ce
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Apr 18 22:39:08 2007 +0200
implemented the m/z ratio calculator
and included that functionality in the XpertCalc and XpertEdit modules
commit 3e9768b7d6fd12666dc563cfbf1dc855f4f5ecf6
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Apr 18 17:55:09 2007 +0200
added QMxpIntProp modelled after QMxpDoubleProp
commit a961edf4b2894b4a83e2a030a349054a4da45689
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Apr 18 17:48:07 2007 +0200
improvements
commit 8484293dd5830d63b30f0367bbf6454ce31e7db5
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Apr 18 17:44:52 2007 +0200
change in the greetings string
commit e415593fe03860eec33546ed4252d6199bc4ac8c
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Apr 18 17:43:42 2007 +0200
ponderable now has the list of properties. Added a convenience set of functions to set the masses
commit 79956362a082f5a89f1cea1b854347e383819355
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Apr 18 17:43:01 2007 +0200
moved the list of properties from monomer and oligomer to ponderable
commit 319007cae07c455ab92143ffe793da379afaf947
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Apr 17 15:06:15 2007 +0200
about dialog stuff
commit 61fb18df333565aed9307439c0a34d0a14746e3b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Apr 17 15:04:41 2007 +0200
improved about dialog
commit caa7bd0e31eb7acd7e4291c541dd0f7c36e05e4c
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Apr 17 12:46:14 2007 +0200
improved about dialog
commit 80bf121ea9f6c8b9f24d35b0cbbabf307ed906db
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Apr 17 12:45:49 2007 +0200
improved about dialog
commit db43b3ce8de31464fa23291f9286abe23f92373d
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Apr 17 12:45:26 2007 +0200
added import of raw file sequence
commit c9a005b4e77e7b2ec0881b0eea57a61739a40dce
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Apr 17 12:44:45 2007 +0200
added appendMonomerText ()
commit 163af3129a94c5f76ad151eb9b31af46b396027b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Apr 17 12:44:03 2007 +0200
added purification button triggering the removal of all tagged chars
commit a712d98a3dd84602d1d86f82845827b3387e134a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Apr 16 20:56:19 2007 +0200
added --version and --help options to command line and QMxpAbout dialog
commit 4532d3dfe241da6a25d1166c2facb086468ff59e
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Apr 16 20:56:00 2007 +0200
added --version and --help options to command line and QMxpAbout dialog
commit fb26c9b32d4bdab61c82ed11b175dd696bee2f3b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Apr 16 20:54:32 2007 +0200
replaced / with QDir::separator ()
commit b80981ed48a8a6cf712e62add0f0bf38bd4b5d49
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Apr 16 14:17:01 2007 +0200
rename all QMxt* to QMxp* and move some file extensions
commit d8afd1db0e6845a911acc8eb909dbb3e9eb1f952
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Apr 16 14:03:45 2007 +0200
first compilable non-code modifs
commit 05f10d7a41626596722d91a24809dc5911939d2d
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Apr 16 11:54:03 2007 +0200
finished the copy/paste stuff and improved the sequence editor
commit 48045b4ff8af083f3151d46a549b40c86c59a691
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Apr 15 20:44:37 2007 +0200
removed debug message
commit b29def4029e8c0372183c2dabe9933f30a0cc8ad
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Apr 15 20:19:22 2007 +0200
make use of new feature in QMxtSequence::makeMonomerList
commit 6ca42b88886bd844734369533f2d1adfa061c117
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Apr 15 20:18:26 2007 +0200
finished the pasted sequence validity check and sequence purification
commit bfc977f0ef0d89510a549480d09016b36ca0527b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Apr 15 20:17:45 2007 +0200
added unspacifying function for sequence text
commit b601d45d6db3c95c00742d0f147e0e26b63c91bb
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Apr 15 08:44:33 2007 +0200
started implementing copy/paste with sequence purification
commit 78408b2fd1b4255a95867409130e808be997f0ce
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Apr 15 08:43:32 2007 +0200
reverted to debug mode
commit 569ee72cf717907259657e214a1bf091223f6cb7
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Apr 15 08:43:06 2007 +0200
added a methionine for cyanogen bromide cleavage
commit 7d3a72f8f8036087f282c1fe5b3b64da805ca58a
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 13 23:14:19 2007 +0200
fixed a number of variable unused warnings
commit 2dcee4c7804a2f778d68af948b388954a7c9accf
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 13 22:56:23 2007 +0200
removed all Q_ASSERT () calls with bad content
That is those calls work in debug mode but cease to work in release mode because Q_ASSERT () calls
are not performed in release mode.
commit 05ecaddc60c46ec37a4b9276241df801ea54e16b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 13 22:33:56 2007 +0200
update of CMakeList.txt files to check compilation using CMake
commit 1b2162d6b27322f72b5ef408cb962d5544a0b8a1
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 13 17:16:51 2007 +0200
cleaned up code with small winxp fixes (treeview mess)
commit dcfe1cee295698413aacd73b3dcfa4d128609c4b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 13 16:25:26 2007 +0200
fixed winxp bug
commit 31ce07125227b54c1e18e0ecaea42f76a3e80f53
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 13 16:24:42 2007 +0200
cosmetic
commit 09685a6b99426b2d75c697aec61d312657e3b55f
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 13 11:32:24 2007 +0200
fixed winxp bug beginRemoveRows
beginRemoveRows (QModelIndex (), 0, count - 1); when no item is in the treeview (count == 0)
this crashes because last is not >= first in the Qt code
commit a8f8788ee032a9ccc34d84fadaba29cd28512ba2
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 13 10:19:23 2007 +0200
reference counting fix
commit 4a6a7d700ba619789609e02fcd3eddd49ee56e7c
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 13 10:17:44 2007 +0200
reference counting fix
commit 1d57d7ab783056baf19114ba348a1a4374f43c60
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 13 10:16:20 2007 +0200
reference counting fix
commit 4316aa07af96a0e94f9d1a97a2865ecf555844e0
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 13 10:15:24 2007 +0200
fixed small memleak
commit fb129c1e2ae836845b4c824a29c2cb357077aab3
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 13 10:14:41 2007 +0200
cosmetic
commit 0a6fd18a7ce6f33803ec87068dcc27c136508d55
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 13 10:13:58 2007 +0200
cosmetic
commit 7a6b619b17bd0a0096582d2033b9cac8a4a9b570
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 13 10:13:15 2007 +0200
fixed failed decrementing of polChemDef ref count upon sequence destruction
commit 1a1d1629f59550971592523c1f8710302bce9a09
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 13 10:11:32 2007 +0200
fixed selected oligomer details update
commit b62755c96514099b60356f1f8dd8e2a8a760a01d
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 13 10:10:35 2007 +0200
fixed sequence accounting due to calling QMxtSequence with bad params
commit 52c33be55c8b7b05d235cd218e8b8800e9ab587f
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 13 10:09:54 2007 +0200
started using valgrind
commit 7254fa1a3afdeaa3f23cfc742206e5a455406db7
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Apr 12 17:04:22 2007 +0200
code cleanup
commit 2fdec4bab573aebe72f9d59ef64eed91562456a2
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Apr 12 16:59:30 2007 +0200
fixed bug with unmodification of vignette
commit 9190596d6f51c4d3bf5c25d84115c5e8c7b67343
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Apr 12 13:19:36 2007 +0200
improving mass search dialog, still crashes when no search and is closed
commit 03e10c25975af5b0d975a957a968feca7cc20950
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Apr 12 13:19:03 2007 +0200
cosmetic
commit 87729164953c72004f9f3c42f49ab8e383661d4c
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Apr 11 23:27:04 2007 +0200
fixed/improved the mass search rendering in treeviews
commit f1fcc270f63e695eb94591be9c02e6dd6baee7c2
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Apr 11 12:08:07 2007 +0200
mass search is now implemented, testing going on
commit fa86ec33c141e13e99aaf83d7666970afabbe6a0
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 6 16:31:53 2007 +0200
fixed huge bugs due to missing & in references to Lists
from polChemDef
This was particularly critical when setting up the treeviews for the different
polymer chemistry definition entities, like having this:
QList<QMxtCleaveSpec *> dataList = m_polChemDef.cleaveSpecList ();
instead of this:
QList<QMxtCleaveSpec *> &dataList = m_polChemDef.cleaveSpecList ();
commit d8db06e82684a02e3a982a164bd93937a5f8b11f
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Apr 6 13:53:19 2007 +0200
rounding some stuff
commit 31900e9134236bfbf4d9d32af22d690d92b02577
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Apr 5 17:40:24 2007 +0200
fragmentations done
commit bdeeb8e1b7a8cb282efbf2858b045ec2ff3b09f6
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Apr 4 22:08:31 2007 +0200
fixed a serious bug
commit 3a58709acbf296b507fb0ff017b7742ccd961557
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Apr 4 17:29:10 2007 +0200
fragmentation chemistry is located in the fragmentation dialog now
commit a617863c1e0807222053926707a6b462b542f902
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Apr 4 17:22:04 2007 +0200
removed masslib/fragmenter.[ch]pp as it was overkilled
commit 0bb4f4324d46ae5fc331db158bd9cefbcf0bc15c
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Apr 4 16:28:32 2007 +0200
finally got qmake to understand the dependency on the libmasslib library
commit a709048f372c377c08d6f2d71ce2f0f7a51912e3
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Apr 4 14:25:46 2007 +0200
improved cleavage stuff and started fragmentation stuff
commit 40c079c8e361aa8f945bde5c7b5dbc9a5be378ee
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Mar 31 22:23:49 2007 +0200
Implemented the cleavage functionality
In particular, all the displaying of the oligomers
All the sorting of the different oligomers according to all the columns (name, coordinates...)
The selection of the oligomer in the sequence editor when an item in the oligomer treeview is activated
commit 751348f6919599abf1c3fab6fbca46ddc73fbbcd
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Mar 29 18:07:24 2007 +0200
Added cleavage support with initial rendering of the
commit 5f3ebdd2f57302334c88b237c40db8a2af9adf90
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Mar 24 17:23:46 2007 +0100
added modification to currently selected sequence
commit 6f012b4c724e4fef8e1f06710c5007e384ab9543
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Mar 24 09:59:04 2007 +0100
cosmetic debugging stuff removed
commit 09d88158e18f6762b9fd5b6e57c04336dd7f67d8
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Mar 24 09:57:25 2007 +0100
Apparently now all the mass calculations are ok
and mass feedback is correct depending on the configuration of the mass calculation engine
commit 8552edaac25d33b7dba10558bdd77aba175aa2c7
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Mar 24 09:55:47 2007 +0100
test sequence of small size
commit c295934893e9c18df52c6e131f64170c455c822b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Mar 23 22:59:17 2007 +0100
fixed bugs and new code about computing selection masses
depending on mouse selection, keyboard movement and keyboard-based selections
also now the masses that are recomputed are displayed in their respective lineEdit widgets
commit 6d4c5cb6165a9d63bf588747814f4351efa49392
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Mar 23 22:56:40 2007 +0100
according to the docs, like the previous commit on application.cpp
commit d6f17b23abdeb40b9e865a276abc50f55f825214
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Mar 23 13:27:38 2007 +0100
According to QApplication docs
commit 57d5e445a922fd9352bcd988e6945050a1804384
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Mar 22 23:26:15 2007 +0100
Cleaned up code and finalized basic mass computing stuff
In particular, now checking/unchecking boxes in the calculation options widgets trigger
proper recalculation of the masses
commit 9c5b80ba657ac0f7bb2dd0ce11cbb8ef17d7e182
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Mar 22 22:54:48 2007 +0100
fix of serious bug in splitParts/parse function pair
commit 69566cf9728b2ff3cfa9c3cf43a55c8ae036b9b2
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Mar 22 19:12:35 2007 +0100
Finally apparently everything compiles and runs...
commit 118f4671f98f1a40d370d0220ac950a443203422
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Mar 22 15:34:48 2007 +0100
added /massgui/core to .gitignore
commit 1a036c6d2329c8ca0d5d5da7e0395dd2a410c863
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Mar 21 21:58:21 2007 +0100
doc-related
commit 3534df4377a6ced1987360b9aeac47daf2f0ffd5
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Mar 21 21:57:37 2007 +0100
Added a member to tell if the calculation must be deep
That is if during the calculation the mass of each monomer in the sequence must be recomputed prior to accounting it to the current masses.
commit a0f9d50b9b4f0027d9e82128f399a7d64c42fde0
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Mar 21 21:43:10 2007 +0100
QMxtPolymer now inherits QMxtPonderable
commit 8893ea32f2a337cb55f46310b080a10a5e1a753f
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Mar 21 21:14:56 2007 +0100
added -Wall -Werror to compilation flags
commit 11637a3c9bf297670808b07d5cf0b83099c32029
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Mar 21 14:21:43 2007 +0100
continuing handling of calculation options in sequence editor window
commit 7dbf60cec9e31d981eb70d2cd36e81d9fb4cabab
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Mar 21 12:37:39 2007 +0100
ensure that all the selection marks are with a zValue > 0
So that they actually draw onto the sequence monomer vignettes and not below\!
commit 91fce883b574c1acc1e45339ba1011bd1645d8ae
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Mar 21 12:31:10 2007 +0100
added makefiles to .gitignore
commit 4f898afe307cbbdd1220960ef20f11fa4b8c444f
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Mar 21 12:29:52 2007 +0100
back to verbose make
commit cb726d610962e16debc66f647b803eaa55181735
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Mar 21 12:29:35 2007 +0100
cosmetic
commit 280e1702343aba9eb3034bb611105b840bea0f11
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Mar 21 12:27:48 2007 +0100
removed Makefile files from git
commit 09cc1f6d03c24acd773f6fea41158a39fb1377d0
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Wed Mar 21 12:24:02 2007 +0100
changed if code with Q_ASSERT code to debug better
commit 0c50a41c2269bf9e624a431264ac48a9f45b0500
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Mar 20 23:03:42 2007 +0100
started handling of calculation options in sequence editor window
commit 1a7e540da3c53bae1ee510efaf6a608b03e820cf
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Mar 20 22:49:40 2007 +0100
fixed glitch
commit a99ce308c87f8e1cf27b6814b63c3ae8ba5cbb29
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Mar 20 22:47:19 2007 +0100
cosmetic
commit 2b03fce068104c78c37cca429064f0a7e63d3bbb
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Mar 20 22:46:50 2007 +0100
fixed glitches
commit d81e381303cb44e3494e892fbf7dfef2109730f9
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Tue Mar 20 22:46:08 2007 +0100
fixed glitches
commit ce891be67374c1d6be5a23e36c571651a7efc15b
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Mar 19 19:51:37 2007 +0100
Added polymer left/right end modification
commit e93db9b20fc35a82b49a39721e5284aadeecfb10
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Mar 19 19:50:48 2007 +0100
Allow change polymer name from sequence editor wnd and other keyboard handling
commit 2fcc4e7ec594acf830bd66a0c1c2ac3d87dce057
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Mar 19 12:09:42 2007 +0100
set cursor wait when updating sequence
commit 8c5e56dbd09064dda4201626fd28a30fa674e1d7
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Mar 19 09:52:26 2007 +0100
set cursor wait when drawing sequence
commit 61e055450ffaff95c7f5a227f8fa0677250614b8
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Mon Mar 19 09:52:05 2007 +0100
set window modified to true upon monomer modif-un-modif
commit f28c65dfc352e7933c5394a280ea664a96207c45
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Mar 18 20:13:57 2007 +0100
ensure the window gets 'modified' after sequence changes
commit dd02cbae3469ef9613c553d54a625bf4ccf02181
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Mar 18 18:07:42 2007 +0100
Cosmetic change
commit 856a62d8b2b1520dbf6b4f60b41002d9a98cd1d1
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Mar 18 17:58:16 2007 +0100
fixed glitch
commit 0c53e8f288d53b3e30cf6bc35c36ef72898ffedc
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sun Mar 18 17:57:54 2007 +0100
Improve error feedback
commit 6c48ecaffa2fc750dce9f61055c8cab34702c49d
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Mar 17 21:40:22 2007 +0100
fixed bug in case a new polymer sequence was created:
the cursor would not be rendered in time upon entering the first code and the window would crash.
commit d888eaca3b87f5854dac90e864200a172be81436
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Mar 17 21:37:51 2007 +0100
reverted to cmake makefiles
commit f1e013a5fed2a2bc4a1c72560899dc0c1bbcbf97
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Mar 17 19:54:03 2007 +0100
Updated docs
commit ae145da1c7b096b19fb759e12026c2b5c8fa061e
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Mar 17 15:32:10 2007 +0100
Finished doing gross work on the QMxtPolChemDefEntity port
commit b68e6df27923df78c1964e0d271343b293748a50
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Mar 17 11:38:28 2007 +0100
In masslib, add QMxtPolChemDefEntity and made relevant classes derive from it
commit dc431c79265f09205a7ba7fd01a9b00467abfefc
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Sat Mar 17 11:37:41 2007 +0100
commented out verbose mode
commit 917f69ef1d586a559b5efe05274d18d628328552
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Mar 16 12:24:40 2007 +0100
cosmetic
commit f1d3a0c3b90ccb091c9ddefe7c5bfb6d2c28ae64
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Mar 16 12:14:17 2007 +0100
added -Werror
commit 7d3b7b57139d236eee343368eef29be1ffc4b7fc
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Mar 16 12:13:48 2007 +0100
reordered the initialization calls for the different classes
commit 934d72ebb38dbd22dcb92f2c5ed766c814807dd1
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Mar 16 09:00:04 2007 +0100
reverted to qmake makefiles
commit fdf24e85e7c174caeb313e3faf676cb5323ae080
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Fri Mar 16 08:59:12 2007 +0100
cosmetic
commit e4c35843ab12d3551670aaff60fd17a4f63d39b3
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Mar 15 18:28:21 2007 +0100
added verbose compiler output
commit fd488558abcf334f21a7350b6d7ac297dfcc3d42
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Mar 15 15:37:09 2007 +0100
debugging stuff
commit 997aa4053ef75261d214a686312b49b5fe124aae
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Mar 15 15:35:46 2007 +0100
updated qmake files
commit 2d88eda5c14cd8cadca1ed7e3f7c4506815fba2d
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Mar 15 15:35:19 2007 +0100
fixed small bug in definition name
commit a1649f5ffd0b227403dfa0ff59d0202564a4bbea
Author: Filippo Rusconi, massxtreme developer <massxtreme-maintainer at massxtreme.org>
Date: Thu Mar 15 10:38:08 2007 +0100
Initial import of the project with .git in the devel source tree.
Please enter the commit message for your changes.
(Comment lines starting with '#' will not be included)
Initial commit
Updated but not checked in:
(will commit)
new file: .gitignore
new file: CMakeLists.txt
new file: ChangeLog
new file: Doxyfile
new file: Makefile
new file: config.h
new file: data/chem_pad.conf
new file: data/pol-chem-defs/massxtreme-pol-chem-defs-cat
new file: data/pol-chem-defs/protein-1-letter/chem_pad.conf
new file: data/pol-chem-defs/protein-1-letter/modification_dictionary
new file: data/pol-chem-defs/protein-1-letter/monomer_dictionary
new file: data/pol-chem-defs/protein-1-letter/protein-1-letter.xml
new file: data/pol-chem-defs/protein-3-letters/chem_pad.conf
new file: data/pol-chem-defs/protein-3-letters/modification_dictionary
new file: data/pol-chem-defs/protein-3-letters/monomer_dictionary
new file: data/pol-chem-defs/protein-3-letters/protein-3-letters.xml
new file: data/pol-seqs/protein-1-letter.mxt
new file: data/pol-seqs/protein-3-letters.mxt
new file: massgui/CMakeLists.txt
new file: massgui/ChangeLog
new file: massgui/Makefile
new file: massgui/application.cpp
new file: massgui/application.hpp
new file: massgui/application.qrc
new file: massgui/atom_def_treeview_item.cpp
new file: massgui/atom_def_treeview_item.hpp
new file: massgui/atom_def_treeview_model.cpp
new file: massgui/atom_def_treeview_model.hpp
new file: massgui/calculator_chem_pad_dlg.cpp
new file: massgui/calculator_chem_pad_dlg.hpp
new file: massgui/calculator_recorder_dlg.cpp
new file: massgui/calculator_recorder_dlg.hpp
new file: massgui/calculator_wnd.cpp
new file: massgui/calculator_wnd.hpp
new file: massgui/chem_pad_button.cpp
new file: massgui/chem_pad_button.hpp
new file: massgui/cleave_spec_def_treeview_item.cpp
new file: massgui/cleave_spec_def_treeview_item.hpp
new file: massgui/cleave_spec_def_treeview_model.cpp
new file: massgui/cleave_spec_def_treeview_model.hpp
new file: massgui/frag_spec_def_treeview_item.cpp
new file: massgui/frag_spec_def_treeview_item.hpp
new file: massgui/frag_spec_def_treeview_model.cpp
new file: massgui/frag_spec_def_treeview_model.hpp
new file: massgui/images/copy.png
new file: massgui/images/cut.png
new file: massgui/images/new.png
new file: massgui/images/open.png
new file: massgui/images/paste.png
new file: massgui/images/save.png
new file: massgui/main.cpp
new file: massgui/main_window.cpp
new file: massgui/main_window.hpp
new file: massgui/massgui.pro
new file: massgui/modif_def_treeview_item.cpp
new file: massgui/modif_def_treeview_item.hpp
new file: massgui/modif_def_treeview_model.cpp
new file: massgui/modif_def_treeview_model.hpp
new file: massgui/monomer_code_evaluator.cpp
new file: massgui/monomer_code_evaluator.hpp
new file: massgui/monomer_def_treeview_item.cpp
new file: massgui/monomer_def_treeview_item.hpp
new file: massgui/monomer_def_treeview_model.cpp
new file: massgui/monomer_def_treeview_model.hpp
new file: massgui/monomer_modification_dlg.cpp
new file: massgui/monomer_modification_dlg.hpp
new file: massgui/pol_chem_definition_wnd.cpp
new file: massgui/pol_chem_definition_wnd.hpp
new file: massgui/sequence_editor_graphics_view.cpp
new file: massgui/sequence_editor_graphics_view.hpp
new file: massgui/sequence_editor_graphics_view_key_sequence_handling.cpp
new file: massgui/sequence_editor_graphics_view_key_sequence_handling.hpp
new file: massgui/sequence_editor_graphics_view_keyboard_handling.cpp
new file: massgui/sequence_editor_graphics_view_keyboard_handling.hpp
new file: massgui/sequence_editor_wnd.cpp
new file: massgui/sequence_editor_wnd.hpp
new file: massgui/ui/calculator_chem_pad_dlg.ui
new file: massgui/ui/calculator_recorder_dlg.ui
new file: massgui/ui/calculator_wnd.ui
new file: massgui/ui/monomer_modification_dlg.ui
new file: massgui/ui/pol_chem_definition_wnd.ui
new file: massgui/ui/sequence_editor_wnd.ui
new file: masslib/CMakeLists.txt
new file: masslib/ChangeLog
new file: masslib/Makefile
new file: masslib/atom.cpp
new file: masslib/atom.hpp
new file: masslib/atom_count.cpp
new file: masslib/atom_count.hpp
new file: masslib/calc_options.cpp
new file: masslib/calc_options.hpp
new file: masslib/chem_ent_vignette.cpp
new file: masslib/chem_ent_vignette.hpp
new file: masslib/chem_ent_vignette_renderer.cpp
new file: masslib/chem_ent_vignette_renderer.hpp
new file: masslib/chemical_entity.cpp
new file: masslib/chemical_entity.hpp
new file: masslib/cleave_motif.cpp
new file: masslib/cleave_motif.hpp
new file: masslib/cleave_rule.cpp
new file: masslib/cleave_rule.hpp
new file: masslib/cleave_spec.cpp
new file: masslib/cleave_spec.hpp
new file: masslib/config_settings.cpp
new file: masslib/config_settings.hpp
new file: masslib/formula.cpp
new file: masslib/formula.hpp
new file: masslib/frag_rule.cpp
new file: masslib/frag_rule.hpp
new file: masslib/frag_spec.cpp
new file: masslib/frag_spec.hpp
new file: masslib/globals.cpp
new file: masslib/globals.hpp
new file: masslib/ionize_rule.cpp
new file: masslib/ionize_rule.hpp
new file: masslib/isotope.cpp
new file: masslib/isotope.hpp
new file: masslib/masslib.pro
new file: masslib/modif.cpp
new file: masslib/modif.hpp
new file: masslib/modif_spec.cpp
new file: masslib/modif_spec.hpp
new file: masslib/monomer.cpp
new file: masslib/monomer.hpp
new file: masslib/monomer_spec.cpp
new file: masslib/monomer_spec.hpp
new file: masslib/pol_chem_def.cpp
new file: masslib/pol_chem_def.hpp
new file: masslib/pol_chem_def_cat_parser.cpp
new file: masslib/pol_chem_def_cat_parser.hpp
new file: masslib/pol_chem_def_spec.cpp
new file: masslib/pol_chem_def_spec.hpp
new file: masslib/polymer.cpp
new file: masslib/polymer.hpp
new file: masslib/ponderable.cpp
new file: masslib/ponderable.hpp
new file: masslib/prop.cpp
new file: masslib/prop.hpp
new file: masslib/sequence.cpp
new file: masslib/sequence.hpp
new file: masslib/user_spec.cpp
new file: masslib/user_spec.hpp
new file: massxtreme.pro
new file: qrc_application.cpp
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