https://sourceforge.net/p/siam/activity/Recent activity for SIAMenFri, 27 Jan 2017 14:37:42 -0000https://sourceforge.net/p/siam/code/205/Bumped to version 1.3.3José María FernándezFri, 27 Jan 2017 14:37:42 -0000https://sourceforge.net/p/siam/code/205/https://sourceforge.net/p/siam/code/204/Added flag to skip uniprot_trembl processingJosé María FernándezFri, 27 Jan 2017 14:37:25 -0000https://sourceforge.net/p/siam/code/204/https://sourceforge.net/p/siam/code/203/Trying to catch the cause of an exceptionJosé María FernándezFri, 27 Jan 2017 14:36:56 -0000https://sourceforge.net/p/siam/code/203/https://sourceforge.net/p/siam/code/202/Added generation of graphics (PDF, SVG) from th...José María FernándezTue, 24 Mar 2015 17:15:32 -0000https://sourceforge.net/p/siam/code/202/https://sourceforge.net/p/siam/code/201/Found and (hopefully) fixed ancient bug which a...José María FernándezMon, 23 Mar 2015 18:24:50 -0000https://sourceforge.net/p/siam/code/201/https://sourceforge.net/p/siam/code/200/Written parser for HMMPfam and HMMScan, and fix...José María FernándezFri, 20 Mar 2015 21:04:27 -0000https://sourceforge.net/p/siam/code/200/https://sourceforge.net/p/siam/code/199/Deprecating an unused functionJosé María FernándezFri, 20 Mar 2015 21:03:00 -0000https://sourceforge.net/p/siam/code/199/https://sourceforge.net/p/siam/code/198/Lots of code refactoring, so SIAM can work with...José María FernándezWed, 18 Mar 2015 14:45:16 -0000https://sourceforge.net/p/siam/code/198/https://sourceforge.net/p/siam/code/197/Several fixes on AC and GAF parsersJosé María FernándezWed, 11 Mar 2015 18:12:05 -0000https://sourceforge.net/p/siam/code/197/https://sourceforge.net/p/siam/code/196/Removing debug traces from codeJosé María FernándezTue, 10 Mar 2015 14:25:10 -0000https://sourceforge.net/p/siam/code/196/https://sourceforge.net/p/siam/code/195/After fixing so many incompatibilities between ...José María FernándezMon, 09 Mar 2015 16:37:53 -0000https://sourceforge.net/p/siam/code/195/https://sourceforge.net/p/siam/code/194/Lots of fixes towards python 3.3 (but it still ...José María FernándezSat, 07 Mar 2015 02:52:42 -0000https://sourceforge.net/p/siam/code/194/https://sourceforge.net/p/siam/code/193/Removing mod_file, and adding several additiona...José María FernándezFri, 06 Mar 2015 23:39:29 -0000https://sourceforge.net/p/siam/code/193/https://sourceforge.net/p/siam/code/192/itemgetter/attrgetter fixesJosé María FernándezFri, 06 Mar 2015 23:17:33 -0000https://sourceforge.net/p/siam/code/192/https://sourceforge.net/p/siam/code/191/map objects are iterable, but not subscriptableJosé María FernándezFri, 06 Mar 2015 23:08:03 -0000https://sourceforge.net/p/siam/code/191/https://sourceforge.net/p/siam/code/190/Replacement of file() constructors (removed fro...José María FernándezFri, 06 Mar 2015 22:33:34 -0000https://sourceforge.net/p/siam/code/190/https://sourceforge.net/p/siam/code/189/Popen returns binary objects which must be deco...José María FernándezFri, 06 Mar 2015 22:02:23 -0000https://sourceforge.net/p/siam/code/189/https://sourceforge.net/p/siam/code/188/Fixed management of the decompression in Python 3José María FernándezFri, 06 Mar 2015 21:15:12 -0000https://sourceforge.net/p/siam/code/188/https://sourceforge.net/p/siam/code/187/Better stacktrace reportingJosé María FernándezFri, 06 Mar 2015 20:32:01 -0000https://sourceforge.net/p/siam/code/187/https://sourceforge.net/p/siam/code/186/Fixed exception chainingJosé María FernándezFri, 06 Mar 2015 20:18:11 -0000https://sourceforge.net/p/siam/code/186/https://sourceforge.net/p/siam/code/185/Removed has_key usage on dict-like objects, as ...José María FernándezFri, 06 Mar 2015 20:03:36 -0000https://sourceforge.net/p/siam/code/185/https://sourceforge.net/p/siam/code/184/HUGE commit containing the code refactoring nee...José María FernándezFri, 06 Mar 2015 19:32:33 -0000https://sourceforge.net/p/siam/code/184/https://sourceforge.net/p/siam/code/183/Exceptions and lambda expressions fixesJosé María FernándezThu, 05 Mar 2015 01:59:49 -0000https://sourceforge.net/p/siam/code/183/https://sourceforge.net/p/siam/code/182/Fixed tabsJosé María FernándezThu, 05 Mar 2015 01:56:42 -0000https://sourceforge.net/p/siam/code/182/https://sourceforge.net/p/siam/code/181/Fixed exception creation, according to python3 ...José María FernándezThu, 05 Mar 2015 01:55:35 -0000https://sourceforge.net/p/siam/code/181/https://sourceforge.net/p/siam/code/180/Fixed lambda expressions and exception raising,...José María FernándezThu, 05 Mar 2015 01:54:37 -0000https://sourceforge.net/p/siam/code/180/https://sourceforge.net/p/siam/code/179/Fixed lambda expressions for python3José María FernándezThu, 05 Mar 2015 01:50:45 -0000https://sourceforge.net/p/siam/code/179/https://sourceforge.net/p/siam/code/178/Fixed tabs and lambda according to python3 stan...José María FernándezThu, 05 Mar 2015 01:41:18 -0000https://sourceforge.net/p/siam/code/178/https://sourceforge.net/p/siam/code/177/Really fixed lambda functionsJosé María FernándezWed, 04 Mar 2015 20:29:21 -0000https://sourceforge.net/p/siam/code/177/https://sourceforge.net/p/siam/code/176/Tab manglingJosé María FernándezMon, 02 Mar 2015 17:22:53 -0000https://sourceforge.net/p/siam/code/176/https://sourceforge.net/p/siam/code/175/Lambda expressions don't use parenthesesJosé María FernándezMon, 02 Mar 2015 17:21:41 -0000https://sourceforge.net/p/siam/code/175/https://sourceforge.net/p/siam/code/174/TabsJosé María FernándezMon, 02 Mar 2015 17:19:57 -0000https://sourceforge.net/p/siam/code/174/https://sourceforge.net/p/siam/code/173/Python 3.3 does not understand '<>' operatorJosé María FernándezMon, 02 Mar 2015 17:17:58 -0000https://sourceforge.net/p/siam/code/173/https://sourceforge.net/p/siam/code/172/installer being prepared for a multi-python env...José María FernándezMon, 02 Mar 2015 17:07:16 -0000https://sourceforge.net/p/siam/code/172/https://sourceforge.net/p/siam/code/171/Fixed inconsistent tabulator usageJosé María FernándezMon, 02 Mar 2015 15:46:41 -0000https://sourceforge.net/p/siam/code/171/https://sourceforge.net/p/siam/code/170/Added pythonver infix to SIAM-WS.env file, so b...José María FernándezMon, 02 Mar 2015 15:41:01 -0000https://sourceforge.net/p/siam/code/170/https://sourceforge.net/p/siam/code/169/Adding PYTHONVER to the generated variables fileJosé María FernándezMon, 02 Mar 2015 15:37:54 -0000https://sourceforge.net/p/siam/code/169/https://sourceforge.net/p/siam/code/168/Compatiblity with python 2.7 and python 3.3José María FernándezMon, 02 Mar 2015 15:31:34 -0000https://sourceforge.net/p/siam/code/168/https://sourceforge.net/p/siam/code/167/Due all the compatibility changes applied, it i...José María FernándezMon, 02 Mar 2015 15:25:30 -0000https://sourceforge.net/p/siam/code/167/https://sourceforge.net/p/siam/code/166/SIAM needs at least six 1.5.0 in order to have ...José María FernándezMon, 02 Mar 2015 15:19:37 -0000https://sourceforge.net/p/siam/code/166/https://sourceforge.net/p/siam/code/165/Adding six compatibility layer for cPickleJosé María FernándezMon, 02 Mar 2015 14:58:19 -0000https://sourceforge.net/p/siam/code/165/https://sourceforge.net/p/siam/code/164/Removed unused moduleJosé María FernándezMon, 02 Mar 2015 14:57:38 -0000https://sourceforge.net/p/siam/code/164/https://sourceforge.net/p/siam/code/163/More code refactoring: urllib + urllib2 calls t...José María FernándezMon, 02 Mar 2015 14:31:54 -0000https://sourceforge.net/p/siam/code/163/https://sourceforge.net/p/siam/code/162/Removing duplicated urllib loadingJosé María FernándezMon, 02 Mar 2015 13:49:20 -0000https://sourceforge.net/p/siam/code/162/https://sourceforge.net/p/siam/code/161/Removing more unneeded urllib callsJosé María FernándezMon, 02 Mar 2015 13:47:59 -0000https://sourceforge.net/p/siam/code/161/https://sourceforge.net/p/siam/code/160/Removing unused urllib libraryJosé María FernándezMon, 02 Mar 2015 13:44:41 -0000https://sourceforge.net/p/siam/code/160/https://sourceforge.net/p/siam/code/159/Second batch of changes, substituting print cal...José María FernándezMon, 02 Mar 2015 12:30:58 -0000https://sourceforge.net/p/siam/code/159/https://sourceforge.net/p/siam/code/158/First steps towards having SIAM running both on...José María FernándezMon, 02 Mar 2015 12:04:21 -0000https://sourceforge.net/p/siam/code/158/https://sourceforge.net/p/siam/code/157/Call pygraphviz instead of explicitly run "dot"José María FernándezMon, 02 Mar 2015 11:43:04 -0000https://sourceforge.net/p/siam/code/157/https://sourceforge.net/p/siam/code/156/Small fixes on graph generationJosé María FernándezTue, 24 Feb 2015 15:52:53 -0000https://sourceforge.net/p/siam/code/156/https://sourceforge.net/p/siam/code/155/Almost all the dependencies, but pygraphviz, ca...José María FernándezTue, 24 Feb 2015 15:24:34 -0000https://sourceforge.net/p/siam/code/155/https://sourceforge.net/p/siam/code/154/Improved matrix drawing. It is not perfect, but...José María FernándezMon, 09 Feb 2015 22:14:16 -0000https://sourceforge.net/p/siam/code/154/https://sourceforge.net/p/siam/code/153/Fixed obscure corner case related to lost GOA s...José María FernándezMon, 09 Feb 2015 21:48:46 -0000https://sourceforge.net/p/siam/code/153/https://sourceforge.net/p/siam/code/152/Forgot insert sentences were stored in class va...José María FernándezSat, 07 Feb 2015 13:45:20 -0000https://sourceforge.net/p/siam/code/152/https://sourceforge.net/p/siam/code/151/Python does not understand unary increment/decr...José María FernándezSat, 07 Feb 2015 13:38:25 -0000https://sourceforge.net/p/siam/code/151/https://sourceforge.net/p/siam/code/150/Even more insertion improvementsJosé María FernándezSat, 07 Feb 2015 13:37:15 -0000https://sourceforge.net/p/siam/code/150/https://sourceforge.net/p/siam/code/149/More tweaks to increase the insertion performanceJosé María FernándezSat, 07 Feb 2015 12:58:34 -0000https://sourceforge.net/p/siam/code/149/https://sourceforge.net/p/siam/code/148/Trying to get a performance boost on UniProt in...José María FernándezSat, 07 Feb 2015 02:26:03 -0000https://sourceforge.net/p/siam/code/148/https://sourceforge.net/p/siam/code/147/Removing last semi-colon, which was leading to ...José María FernándezSat, 07 Feb 2015 02:02:55 -0000https://sourceforge.net/p/siam/code/147/https://sourceforge.net/p/siam/code/146/Fixed extraction of taxonomic identifiers, as i...José María FernándezSat, 07 Feb 2015 01:59:29 -0000https://sourceforge.net/p/siam/code/146/https://sourceforge.net/p/siam/code/145/Queries optimized for SQLiteJosé María FernándezSat, 07 Feb 2015 01:31:47 -0000https://sourceforge.net/p/siam/code/145/https://sourceforge.net/p/siam/code/144/Optimizations (1 of 2)José María FernándezFri, 06 Feb 2015 18:54:21 -0000https://sourceforge.net/p/siam/code/144/https://sourceforge.net/p/siam/code/143/Performance improvements due explicit index cre...José María FernándezThu, 05 Feb 2015 14:48:43 -0000https://sourceforge.net/p/siam/code/143/https://sourceforge.net/p/siam/code/142/Typo in method name used to fill in uniprot objectJosé María FernándezThu, 05 Feb 2015 13:41:22 -0000https://sourceforge.net/p/siam/code/142/https://sourceforge.net/p/siam/code/141/Lambda functions in Python are not so smart as ...José María FernándezThu, 05 Feb 2015 09:24:21 -0000https://sourceforge.net/p/siam/code/141/https://sourceforge.net/p/siam/code/140/Class variables are not reachable in this way f...José María FernándezThu, 05 Feb 2015 08:54:29 -0000https://sourceforge.net/p/siam/code/140/https://sourceforge.net/p/siam/code/139/Forgot a parenthesesJosé María FernándezThu, 05 Feb 2015 08:42:37 -0000https://sourceforge.net/p/siam/code/139/https://sourceforge.net/p/siam/code/138/Optimization of offline UniProt queriesJosé María FernándezThu, 05 Feb 2015 08:41:00 -0000https://sourceforge.net/p/siam/code/138/https://sourceforge.net/p/siam/code/137/Issuing wrong query to the databaseJosé María FernándezWed, 04 Feb 2015 10:36:45 -0000https://sourceforge.net/p/siam/code/137/https://sourceforge.net/p/siam/code/136/Replacing wrong uses of issubclass by right isi...José María FernándezWed, 04 Feb 2015 09:16:53 -0000https://sourceforge.net/p/siam/code/136/https://sourceforge.net/p/siam/code/135/Some code reorderingJosé María FernándezThu, 18 Dec 2014 16:51:16 -0000https://sourceforge.net/p/siam/code/135/https://sourceforge.net/p/siam/code/134/[bugfix]Avoided an upstream bug in Python gzip ...José María FernándezThu, 18 Dec 2014 01:47:39 -0000https://sourceforge.net/p/siam/code/134/https://sourceforge.net/p/siam/code/133/[feature]OBO parser did not know how to handle ...José María FernándezThu, 18 Dec 2014 01:08:54 -0000https://sourceforge.net/p/siam/code/133/https://sourceforge.net/p/siam/code/132/Documenting the program only understands OBO 1.0José María FernándezThu, 18 Dec 2014 00:50:01 -0000https://sourceforge.net/p/siam/code/132/https://sourceforge.net/p/siam/code/131/* As some old GOA files were double recompresse...José María FernándezThu, 18 Dec 2014 00:29:29 -0000https://sourceforge.net/p/siam/code/131/https://sourceforge.net/p/siam/code/130/Latest versions of setuptools do not have Libra...José María FernándezWed, 17 Dec 2014 18:04:26 -0000https://sourceforge.net/p/siam/code/130/https://sourceforge.net/p/siam/code/129/Added UniProxy concept, so we can switch betwee...José María FernándezWed, 17 Dec 2014 17:34:02 -0000https://sourceforge.net/p/siam/code/129/https://sourceforge.net/p/siam/code/128/Reworked calls, due the changes in mod_db.SIAMDBJosé María FernándezWed, 17 Dec 2014 17:31:46 -0000https://sourceforge.net/p/siam/code/128/https://sourceforge.net/p/siam/code/127/* Added ID alias tableJosé María FernándezWed, 17 Dec 2014 17:21:53 -0000https://sourceforge.net/p/siam/code/127/https://sourceforge.net/p/siam/code/126/Removing unused parameters being passed to the ...José María FernándezWed, 17 Dec 2014 17:20:01 -0000https://sourceforge.net/p/siam/code/126/https://sourceforge.net/p/siam/code/125/We cannot discard obsolete terms because they c...José María FernándezWed, 17 Dec 2014 17:19:12 -0000https://sourceforge.net/p/siam/code/125/https://sourceforge.net/p/siam/code/124/Documenting new parameter (to be implemented)José María FernándezWed, 17 Dec 2014 15:51:07 -0000https://sourceforge.net/p/siam/code/124/https://sourceforge.net/p/siam/code/123/[bugfix] Forgot to store the ec2go_table in the...José María FernándezWed, 15 Jan 2014 12:10:26 -0000https://sourceforge.net/p/siam/code/123/https://sourceforge.net/p/siam/code/122/[optimize] As EC list associated to a UniProt e...José María FernándezSat, 11 Jan 2014 17:01:44 -0000https://sourceforge.net/p/siam/code/122/https://sourceforge.net/p/siam/code/121/[bugfix] SQLite3 executemany cannot be used wit...José María FernándezFri, 10 Jan 2014 20:05:56 -0000https://sourceforge.net/p/siam/code/121/https://sourceforge.net/p/siam/code/120/[bugfix] There could be some corner cases where...José María FernándezFri, 10 Jan 2014 19:04:04 -0000https://sourceforge.net/p/siam/code/120/https://sourceforge.net/p/siam/code/119/[bugfix] New code was not assigning the scores ...José María FernándezFri, 10 Jan 2014 18:26:40 -0000https://sourceforge.net/p/siam/code/119/https://sourceforge.net/p/siam/code/118/[feature] As new evidence code scores are confi...José María FernándezFri, 10 Jan 2014 18:25:32 -0000https://sourceforge.net/p/siam/code/118/https://sourceforge.net/p/siam/code/117/[bugfix] More cosmetic changesJosé María FernándezThu, 09 Jan 2014 18:31:55 -0000https://sourceforge.net/p/siam/code/117/https://sourceforge.net/p/siam/code/116/[bugfix] Cosmetic fixes on the outputJosé María FernándezThu, 09 Jan 2014 17:47:05 -0000https://sourceforge.net/p/siam/code/116/https://sourceforge.net/p/siam/code/115/[bugfix] XML Schema was not in sync with genera...José María FernándezThu, 09 Jan 2014 17:00:13 -0000https://sourceforge.net/p/siam/code/115/https://sourceforge.net/p/siam/code/114/[bugfix] Another "variable" moved to a class va...José María FernándezThu, 09 Jan 2014 16:59:08 -0000https://sourceforge.net/p/siam/code/114/https://sourceforge.net/p/siam/code/113/[bugfix] Sequence_Table was being printed twice!José María FernándezThu, 09 Jan 2014 14:59:13 -0000https://sourceforge.net/p/siam/code/113/https://sourceforge.net/p/siam/code/112/[feature] Evidence code scoring system has been...José María FernándezThu, 09 Jan 2014 12:11:53 -0000https://sourceforge.net/p/siam/code/112/https://sourceforge.net/p/siam/code/111/[feature] Added new mod_db class, which manages...José María FernándezWed, 08 Jan 2014 20:14:49 -0000https://sourceforge.net/p/siam/code/111/https://sourceforge.net/p/siam/code/110/[feature] Added future parameters and descripti...José María FernándezWed, 08 Jan 2014 20:12:10 -0000https://sourceforge.net/p/siam/code/110/https://sourceforge.net/p/siam/code/109/[bugfix] On custom GOA gaf file, wrong initiali...José María FernándezTue, 17 Dec 2013 20:04:46 -0000https://sourceforge.net/p/siam/code/109/https://sourceforge.net/p/siam/code/108/[bugfix] Make R less dependent on the configura...José María FernándezMon, 16 Dec 2013 15:43:35 -0000https://sourceforge.net/p/siam/code/108/https://sourceforge.net/p/siam/code/107/[janitor] Labelling a couple of methods as depr...José María FernándezFri, 13 Dec 2013 18:03:51 -0000https://sourceforge.net/p/siam/code/107/https://sourceforge.net/p/siam/code/105/[bugfix] KMlocalHybrid and KMlocalEZHybrid did ...José María FernándezWed, 11 Dec 2013 12:37:11 -0000https://sourceforge.net/p/siam/code/105/