| when (GMT) | who | where | what |
| 2010-02-09 02:09 | floflooo | src/Pipeline/Minimo.acf |
Change in Minimo to avoid producing a temporary file when importing sequencesMinimo documentation update |
| 2010-02-07 02:25 | floflooo | src/PerlModules/Foundation.pm |
Little documentation update |
| 2010-02-06 14:09 | floflooo | src/Align/align.cc src/Common/prob.cc |
Bug fix to prevent the error rate from growing larger than 1. |
| 2010-02-04 11:33 | floflooo | INSTALL configure.ac config/config.guess config/config.sub config/depcomp config/install-sh config/missing config/mkinstalldirs config/perlmodules.m4 src/Converters/Makefile.am |
Updated the configure system so that Perl module dependencies are checked |
| 2010-02-04 09:38 | floflooo | src/Converters/ace2contig.pl src/Converters/amos2ace.pl src/Converters/ca2ctg.pl src/Converters/ca2singletons.pl src/Converters/contig2contig.pl src/Converters/ta2ace.pl src/Converters/tarchive2amos.pl src/Converters/toAmos.pl src/PerlModules/Foundation.pm src/Utils/contig2fasta.pl src/Utils/ktrimfrg.pl src/Utils/preTA.pl src/Validation/postCAqc.pl |
Created a centralized facility in TIGR::Foundation to get/set a temporary directory.Updated all the Perl scripts so that they use this facility. |
| 2010-02-04 00:07 | floflooo | README |
Updated the README file to state that some AMOS scripts depend on externalPerl modules. |
| 2010-01-29 04:28 | floflooo | src/Align/align.cc src/Align/make-consensus.cc src/Pipeline/Minimo.acf |
Little fix in Minimo |
| 2010-01-27 16:58 | skoren | src/Bambus/Untangler/AsmLib.pm src/Bambus/Untangler/DotLib.pm src/Bambus/Untangler/Makefile.am src/Bambus/Untangler/printScaff.pl |
Missed checkin of two additional modules used by printScaff |
| 2010-01-22 15:43 | skoren | src/Bambus/Bundler/OrientContigs.cc src/Bambus/Bundler/Utilities_Bundler.cc |
Fixed off-by-one errors in output |
| 2010-01-22 14:53 | skoren | src/Bambus/Bundler/Utilities_Bundler.cc |
Fix graph in node naming in repeat detection graph building |
| 2010-01-20 04:00 | skoren | configure.ac |
Added Bambus 1 style linearization and output functionality |
| 2010-01-20 04:00 | skoren | src/Bambus/Makefile.am |
Add Bambus 1 style linearization and output functionality |
| 2010-01-20 03:59 | skoren | src/Bambus/Untangler/Makefile.am src/Bambus/Untangler/printScaff.pl src/Bambus/Untangler/untangle.pl |
Added bambus 1 based linearization and output functionality |
| 2010-01-19 22:58 | skoren | src/Bambus/Bundler/MarkRepeats.cc src/Bambus/Bundler/OrientContigs.cc |
Remove debug output by default |
| 2010-01-19 13:42 | floflooo | src/Pipeline/Minimo.acf |
Minimo now uses twice the error in the make-consensus step (accordingly to instructionsin align.cc) |
| 2010-01-04 21:59 | mcschatz | src/Converters/toAmos.pl |
Save fatal errors to log file |
| 2009-12-31 14:43 | floflooo | README src/Align/align.cc src/Align/align.hh src/Align/make-consensus.cc src/Converters/amos2ace.pl |
README update for MinimoSlight macro rearrangement in align.cc and align.hhRemoved tabs from make-consensusSlight clarification of amos2ace |
| 2009-12-26 16:58 | floflooo | src/Align/align.cc src/Align/align_poly.cc src/Align/overlap-align.cc |
Fixed the following compilation errors:align.cc: In member function ‘void Vote_t::Incr_After(char, int)’:align.cc:252: error: invalid conversion from ‘const char*’ to ‘char*’align.cc: In member function ‘void Vote_t::Incr_By(char, bool, int)’:align.cc:290: error: invalid conversion from ‘const char*’ to ‘char*’align.cc: In member function ‘void Vote_t::Set_To(char, bool)’:align.cc:365: error: invalid conversion from ‘const char*’ to ‘char*align_poly.cc: In member function ‘void Vote_t::Incr_After(char)’:align_poly.cc:252: error: invalid conversion from ‘const char*’ to ‘char*’align_poly.cc: In member function ‘void Vote_t::Incr_By(char, bool)’:align_poly.cc:290: error: invalid conversion from ‘const char*’ to ‘char*’align_poly.cc: In member function ‘void Vote_t::Set_To(char, bool)’:align_poly.cc:365: error: invalid conversion from ‘const char*’ to ‘char*’overlap-align.cc:273: error: ‘printf’ was not declared in this scope |
| 2009-12-26 16:03 | floflooo | src/Foundation/FileSystem.cc |
Fixed the compilation error: FileSystem.cc:58: error: invalid conversion from ‘const char*’ to ‘char*’ |
| 2009-12-17 18:47 | floflooo | src/Pipeline/Minimo.acf |
Fixed a typo in a Minimo variable name |
| 2009-12-10 06:34 | floflooo | src/Pipeline/Minimo.acf |
Support for user-specified alignment wiggle value in Minimo |
| 2009-12-10 06:27 | floflooo | src/Align/align.cc |
[no log message] |
| 2009-12-10 06:22 | floflooo | src/Align/align.cc src/Align/hash-overlap.cc |
Updated documentation |
| 2009-12-07 23:07 | aphillippy | src/AMOS/IDMap_AMOS.cc src/AMOS/Message_AMOS.cc src/AMOS/utility_AMOS.cc src/Common/amp.cc src/Foundation/Options.cc |
[no log message] |
| 2009-12-01 16:04 | lucidanomaly | src/Converters/Makefile.am src/Converters/toAmos.pl src/Converters/toAmos_experimental.cc |
Added toAmos_experimental c++ file for inserting data into AMOS banks |
Updated at Mon Feb 22 17:36:25 UTC 2010