Heinz-Alexander Fuetterer and Nicola Soranzo
347e7b8301
chore: fix typos
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Co-authored-by: Nicola Soranzo <nicola.soranzo@gmail.com >
2023-10-13 16:29:27 +02:00
Nicola Soranzo
f865e8359f
Deprecate size attribute of <param/> and remove it from tools
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Also:
- dos2unix test/functional/tools/for_workflows/head.xml
- Single-quote text and data params in `<command/>`
- Remove deprecated `interpreter` attribute of `<command />`
2018-09-10 11:34:37 +01:00
Daniel Blankenberg
8a6b0001c2
Minor fix for 04e8ed0cd930.
2011-11-29 17:35:14 -05:00
Daniel Blankenberg
023c4db69e
Replace old filter() on tool_data_tables by param value hack with param.fields.path for several tools.
2011-11-29 17:30:14 -05:00
Kelly Vincent
8c13d8e6e8
Corrected output labels to be in line with other tools for NGS tools: sam_to_bam, sam_merge, sam_pileup, bam_to_sam, PerM, bowtie_color_wrapper, bowtie_wrapper, bwa_wrapper, lastz_paired_reads_wrapper, lastz_wrapper, srma_wrapper
2011-01-12 13:31:04 -05:00
Kelly Vincent
f61d147034
Added --max and --un file output options to Bowtie and modified tests to test for them.
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Made Bowtie test files longer (more than one test read).
Added explanation of canonical and full reference genome variants to BWA and Bowtie.
Added informative labels to output files for NGS tools.
2010-12-01 10:54:35 -05:00
Kelly Vincent
d149382f05
Added version info to stdout for NGS tools
2010-11-24 12:35:49 -05:00
Kelly Vincent
7d0ff14df9
Converted several tools to data table style of loc file handling (Bowtie, BWA, Lastz, Megablast, PerM, SRMA). Cleaned up several tool XML files, removing unnecessary None parameters.
2010-11-08 00:10:13 -05:00
Nate Coraor
e05f11bc73
Convert a bunch of binary requirement tags to package requirements, and change the sputnik tool to call 'sputnik' instead of 'bx-sputnik'.
2010-10-07 16:23:57 -04:00
Kelly Vincent
d1d106508a
Don't use unsanitized parameters in BWA, Bowtie, and PerM wrappers
2010-09-16 11:19:08 -04:00
Kelly Vincent
fc8a137b5e
First pass as PerM. Also made cosmetic changes to BWA.
2010-03-17 16:40:36 -04:00
