| 2010-07-19 |
Robert Buels | added -k options to bac assembler to keep the assembly...
|
commit | commitdiff | tree |
| 2010-07-16 |
Robert Buels | rename bac assembler script to reflect what it is actually...
|
commit | commitdiff | tree |
| 2010-07-16 |
Robert Buels | tweak wording in bac assembly readme
|
commit | commitdiff | tree |
| 2010-07-16 |
Robert Buels | added README.txt inside bac assembly tarfile
|
commit | commitdiff | tree |
| 2010-07-16 |
Robert Buels | bugfix to precluster and contig name leading zeroes
|
commit | commitdiff | tree |
| 2010-07-16 |
Robert Buels | tweak file naming inside bac assembly tarfile
|
commit | commitdiff | tree |
| 2010-07-16 |
Robert Buels | bac assembler, added some leading zeros to contig and...
|
commit | commitdiff | tree |
| 2010-07-16 |
Robert Buels | bac assembler, fix bad bug with phrap consensus seq...
|
commit | commitdiff | tree |
| 2010-07-16 |
Robert Buels | removed unnecessary lingering variable
|
commit | commitdiff | tree |
| 2010-07-16 |
Robert Buels | bac assembler now always assembles for all chromosomes...
|
commit | commitdiff | tree |
| 2010-07-16 |
Robert Buels | tweak directory structure of bac assembly products
|
commit | commitdiff | tree |
| 2010-07-16 |
Robert Buels | changed bac assembler so it makes a tarfile of the...
|
commit | commitdiff | tree |
| 2010-07-15 |
Robert Buels | added file to bac contigging with some metadata about...
|
commit | commitdiff | tree |
| 2010-07-15 |
Robert Buels | bac assembler should only make assembled contig files...
|
commit | commitdiff | tree |
| 2010-07-15 |
Robert Buels | make bac assembler go through the chromosomes in numerical...
|
commit | commitdiff | tree |
| 2010-07-15 |
Robert Buels | more work on phrap contigs output dir, now membership...
|
commit | commitdiff | tree |
| 2010-07-15 |
Robert Buels | various work and refactoring on bac assembly script...
|
commit | commitdiff | tree |
| 2010-07-15 |
Robert Buels | added per-chromosome consensus sequence sets, containing...
|
commit | commitdiff | tree |
| 2010-07-14 |
Robert Buels | update bac assembler script to use redone precluster...
|
commit | commitdiff | tree |
| 2010-07-14 |
Robert Buels | bugfix to bac assembler sequence edit compensation
|
commit | commitdiff | tree |
| 2010-07-14 |
Robert Buels | tweak bac assembler simplification settings
|
commit | commitdiff | tree |
| 2010-07-13 |
Robert Buels | added -A option to bac assembler, which saves precluster...
|
commit | commitdiff | tree |
| 2010-07-12 |
Robert Buels | added hack to cope with phrap sequence edits in bac...
|
commit | commitdiff | tree |
| 2010-07-12 |
Robert Buels | expanded comment about AGP complimented sequences in...
|
commit | commitdiff | tree |
| 2010-07-12 |
Robert Buels | bugfix to bac agp generator tempfile handling in new...
|
commit | commitdiff | tree |
| 2010-07-12 |
Robert Buels | add unmapped bacs to bac contig generation
|
commit | commitdiff | tree |
| 2010-07-12 |
Robert Buels | bac contig generator now uses phrap's golden path for...
|
commit | commitdiff | tree |
| 2010-07-09 |
Robert Buels | in bac assembler, fix bug in component coordinates...
|
commit | commitdiff | tree |
| 2010-07-09 |
Robert Buels | add explicit dbh disconnect to squash warning in bac...
|
commit | commitdiff | tree |
| 2010-07-09 |
Robert Buels | in bac assembler, initialize Cview code earlier so...
|
commit | commitdiff | tree |
| 2010-07-09 |
Robert Buels | force verbose backtraces in bac assembler
|
commit | commitdiff | tree |
| 2010-07-07 |
Robert Buels | added verbose setting to tomato agp validator
|
commit | commitdiff | tree |
| 2010-07-07 |
Robert Buels | remove db conn verbose invocation
|
commit | commitdiff | tree |
| 2010-07-07 |
Robert Buels | roe_sync data test syntax error, silly
|
commit | commitdiff | tree |
| 2010-07-07 |
Robert Buels | fixed roe_sync test, needed a stable sort order
|
commit | commitdiff | tree |
| 2010-07-07 |
Robert Buels | give up trying to count tests in t/bacsubmission.t...
|
commit | commitdiff | tree |
| 2010-07-07 |
Robert Buels | removed unecessary Bio::Tools::RepeatMasker use
|
commit | commitdiff | tree |
| 2010-07-07 |
Robert Buels | stray characters
|
commit | commitdiff | tree |
| 2010-07-07 |
Robert Buels | increase allowable vector sequence in submitted BACs...
|
commit | commitdiff | tree |
| 2010-07-01 |
Robert Buels | fix usage message in genomic end seqs loader
|
commit | commitdiff | tree |
| 2010-07-01 |
Robert Buels | normalized bac contact info config
|
commit | commitdiff | tree |
| 2010-07-01 |
Robert Buels | removed bac pipeline warning about missing .qual file.
|
commit | commitdiff | tree |
| 2010-07-01 |
Robert Buels | added data test to check the syncing of roe bac data
|
commit | commitdiff | tree |
| 2010-06-02 |
Robert Buels | added missing load for CXGN::VHost in tpf/agp module
|
commit | commitdiff | tree |
| 2010-05-18 |
Robert Buels | bugfix to potato bac loader, now uses all refs in a...
|
commit | commitdiff | tree |
| 2010-05-18 |
Robert Buels | potato mirror script no longer dies if cannot infer...
|
commit | commitdiff | tree |
| 2010-05-18 |
Robert Buels | no longer using separate cron script to publish bac...
|
commit | commitdiff | tree |
| 2010-05-18 |
Robert Buels | moved potato bac mirroring script in here
|
commit | commitdiff | tree |
| 2010-05-11 |
Rob Buels | forgot to commit test data for one of the tomato genome...
|
commit | commitdiff | tree |
| 2010-05-06 |
Rob Buels | fixed bac pipeline email addresses that were breaking...
|
commit | commitdiff | tree |
| 2010-05-02 |
Rob Buels | some more tweaks and bugfixes to roe import bac registry...
|
commit | commitdiff | tree |
| 2010-05-02 |
Rob Buels | some bugfixes to new roe sequencing-status setting...
|
commit | commitdiff | tree |
| 2010-04-30 |
Rob Buels | added support for inferring/setting Roe BAC chromosome...
|
commit | commitdiff | tree |
| 2010-03-19 |
Rob Buels | removed some references to old CXGN::Genomic aggregate...
|
commit | commitdiff | tree |
| 2010-02-25 |
Rob Buels | tweak error message, more informative
|
commit | commitdiff | tree |
| 2010-02-24 |
Rob Buels | should not be setting sigdie behind the scenes
|
commit | commitdiff | tree |
| 2010-02-24 |
Rob Buels | tweaked versioned gff error message
|
commit | commitdiff | tree |
| 2010-02-23 |
Rob Buels | missing use in new gbrowse loader
|
commit | commitdiff | tree |
| 2010-02-23 |
Rob Buels | added new bsub load_gbrowse command, replacing bsub_cron_rel...
|
commit | commitdiff | tree |
| 2010-02-23 |
Rob Buels | updated bsub db_load to use new BACPublisher role
|
commit | commitdiff | tree |
| 2010-02-23 |
Rob Buels | tweaked placement of abstract sub in roe_sync bsub...
|
commit | commitdiff | tree |
| 2010-02-23 |
Rob Buels | added CXGN::TomatoGenome::BACPublisher, a moose role...
|
commit | commitdiff | tree |
| 2010-02-23 |
Rob Buels | removed filehandle silliness for silencing Bio::DB...
|
commit | commitdiff | tree |
| 2010-02-23 |
Rob Buels | converted CXGN::DB::GFF::Versioned to take normal DBI...
|
commit | commitdiff | tree |
| 2010-02-20 |
Rob Buels | moved CXGN::DB::GFF::Versioned into tomato_genome component
|
commit | commitdiff | tree |
| 2010-02-19 |
Rob Buels | moved cxgn_pg Bio::DB::GFF adaptor into tomato_genome...
|
commit | commitdiff | tree |
| 2010-02-16 |
Rob Buels | removing old bsub_load.pl script, replaced by CXGN...
|
commit | commitdiff | tree |
| 2010-02-16 |
Rob Buels | comment out tomato_genome bioperl dependency. Shipwright...
|
commit | commitdiff | tree |
| 2010-02-13 |
Rob Buels | updated tomato_genome build dependencies
|
commit | commitdiff | tree |
| 2010-02-13 |
Rob Buels | tweaked tomato_genome component build to install scripts
|
commit | commitdiff | tree |
| 2010-02-13 |
Rob Buels | moved CXGN::Annotation modules into tomato_genome,...
|
commit | commitdiff | tree |
| 2010-02-13 |
Rob Buels | moved CXGN::TomatoGenome modules and scripts to tomatogenome...
|
commit | commitdiff | tree |
| 2010-02-12 |
Rob Buels | tweaked bac pipeline loader progress messages
|
commit | commitdiff | tree |
| 2010-02-12 |
Rob Buels | --debug should really not determine whether tomato...
|
commit | commitdiff | tree |
| 2010-02-12 |
Rob Buels | tweaked bac loader organism handling, improved test...
|
commit | commitdiff | tree |
| 2010-02-12 |
Rob Buels | oops, syntax error in bac loader test script
|
commit | commitdiff | tree |
| 2010-02-12 |
Rob Buels | tightened cmdline validation for new bac loader
|
commit | commitdiff | tree |
| 2010-02-12 |
Rob Buels | new bac pipeline loading script, with tests
|
commit | commitdiff | tree |
| 2010-02-11 |
Rob Buels | tweaked tomato_genome component tests in preparation...
|
commit | commitdiff | tree |
