Commits

Breadcrumbs

History for

onmaster

User selector

All users

Datepicker

All time

Commit History

Commits on Dec 3, 2019

• remove py2 (#999)

  Show description for a0a717d
  tomkinsc

  authored
  a0a717d

Commits on Oct 16, 2019

• stage numbering a little funny now

  dpark01

  committed
  cbe3dc6

• fix demux_plus dx defaults based on new numbering scheme

  dpark01

  committed
  49f7320

• looks like the new dxwdl gets rid of the common applet in simple linear dags?

  dpark01

  committed
  9306b9e

Commits on Sep 11, 2019

• update picard 2.18.11 -> 2.20.3 (#977)

  Show description for 1dd180d
  tomkinsc

  authored
  1dd180d

Commits on Jul 2, 2019

• add tool wrapper for BBMap (#969)

  Show description for 6904bcf
  

  notestaff

  authored and

  tomkinsc

  committed
  6904bcf

Commits on Jun 29, 2019

• add WDL task to aggregate spikein reports (#965)

  Show description for 310b0d6
  tomkinsc

  authored
  310b0d6

Commits on Apr 10, 2019

• update expected output for unit tests of barcode helper

  Show description for bc0f023
  tomkinsc

  committed
  bc0f023

• travis conda debug (#944)

  tomkinsc

  authored
  f5078cb

Commits on Mar 3, 2019

• Replace remote S3 paths with local paths for test_snake dryruns.

  Show description for 58dc717
  yesimon

  committed
  58dc717

Commits on Mar 2, 2019

• Upgrade pytest to 4.2.0

  Show description for 18e6835
  yesimon

  committed
  18e6835

Commits on Mar 1, 2019

• Update illumina_indices.py (#933)

  Show description for 60f1eaa
  

  09aaronl

  authored and

  tomkinsc

  committed
  60f1eaa

• allow outlier_barcodes to act on single-index runs (#932)

  Show description for b303c1b
  tomkinsc

  authored
  b303c1b

Commits on Feb 14, 2019

• let scaffolder use ambiguous alignments when no unambiguous ones exist (#904)

  Show description for 8c17bb0
  notestaff

  authored
  8c17bb0

• illumina.py: fixed small bug where exception was not raised for missing files (#926)

  Show description for aeb76dd
  notestaff

  authored
  aeb76dd

Commits on Jan 31, 2019

• add function to assist Illumina index correction (#917)

  Show description for 9c0bc80
  tomkinsc

  authored
  9c0bc80

Commits on Jan 30, 2019

• fix util.misc.available_cpu_count() (#912)

  Show description for ed106c3
  notestaff

  authored
  ed106c3

Commits on Jan 24, 2019

• Create a stub CondaPackage for use with tests.

  Show description for e9cb461
  yesimon

  committed
  e9cb461

Commits on Nov 27, 2018

• add unit tests for reading feature id from tbl file

  dpark01

  committed
  ad9a6ce

Commits on Nov 26, 2018

• Adding commands for working with kmer sets using the KMC tool. (#854)

  Show description for b546eae
  notestaff

  authored
  b546eae

Commits on Oct 25, 2018

• assembly.py - added --alwaysSucceed option to SPAdes (#888)

  Show description for 8cc2ffa
  notestaff

  authored
  8cc2ffa

Commits on Oct 22, 2018

• assembly.assemble_spades: added option to drop contigs shorter than given length. (#889)

  Show description for fbf6003
  notestaff

  authored
  fbf6003

Commits on Aug 28, 2018

• add metagenomics.py::filter_bam_to_taxa (#883)

  Show description for 2faf679
  tomkinsc

  authored
  2faf679

Commits on Aug 14, 2018

• update spades to 3.12.0 (#878)

  notestaff

  authored
  0931224

Commits on Jul 25, 2018

• add workflows for isnvs_merge_to_vcf (#864)

  Show description for 03b8368
  tomkinsc

  authored
  03b8368

Commits on Jul 24, 2018

• testing: fixed an issue with the handling of tempdirs (#866)

  Show description for e2515d3
  

  notestaff

  authored and

  tomkinsc

  committed
  e2515d3

Commits on Jul 23, 2018

• update biopython 1.70 -> 1.72, allow passing api_key to NCBI Entrez API.

  Show description for 3b3db6a
  tomkinsc

  committed
  3b3db6a

• add tarball merger (#853)

  Show description for 54c912b
  tomkinsc

  authored
  54c912b

• dxWDL 0.72: revert WDLs to unbound task inputs (#857)

  Show description for da91e3a
  

  dpark01

  authored and

  tomkinsc

  committed
  da91e3a

Commits on Jul 17, 2018

• reenable vphaser tests under osx, skip TestNcbiFetch since it was not being used; py2-style TestFeatureTransfer init (#848)

  tomkinsc

  authored
  5365a67

Commits on Jul 16, 2018

• change fuzzy position operators for RHS clipped features (#847)

  Show description for 6cb945e
  tomkinsc

  authored
  6cb945e

Commits on Jul 9, 2018

• conftest.py fixes (#840)

  Show description for a6ce0be
  notestaff

  authored
  a6ce0be

Commits on Jul 6, 2018

• Add WDL for iSNVs/v-phaser (#828)

  Show description for 567968f
  tomkinsc

  authored
  567968f

Commits on Jul 2, 2018

• allow revised RunInfo.xml file to be passed to illumina_demux; date parsing changes to support NovaSeq (#831)

  Show description for 2029e36
  tomkinsc

  authored
  2029e36

Commits on Jun 22, 2018

• Merge branch 'master' into ct-debug-feature-table

  tomkinsc

  authored
  41a463d

Pagination

PreviousNext