Mercurial > repos > madisonflannery > abricate
changeset 12:0f489fdf67f5 draft
planemo upload commit b96f36f68454b65fc6b53900024f0dd4e4630920-dirty
| author | madisonflannery |
|---|---|
| date | Mon, 03 Oct 2016 01:25:18 -0400 |
| parents | 2db320c96c7b |
| children | e2b64057c426 |
| files | abricate.xml tool_dependencies.xml |
| diffstat | 2 files changed, 3 insertions(+), 15 deletions(-) [+] |
line wrap: on
line diff
--- a/abricate.xml Mon Oct 03 01:00:04 2016 -0400 +++ b/abricate.xml Mon Oct 03 01:25:18 2016 -0400 @@ -1,10 +1,10 @@ <tool id="abricate" name="ABRicate" version="0.1.0"> <requirements> - <requirement type="package" version="0.3">abricate</requirement> <requirement type="package" version="5.18.1">perl</requirement> <requirement type="package" version="2.2.31">blast+</requirement> + <requirement type="package" version="0.3">abricate</requirement> </requirements> - + <version_command>abricate --version</version_command> <command detect_errors="exit_code"><![CDATA[ @@ -92,18 +92,6 @@ **Output** ABRicate will produce a tab-seperated output file with the following outputs: - Column | Example | Description - -------|---------|------------ - FILE | Ecoli.fna | The filename this hit came from - SEQUENCE | contig000324 | The sequence in the filename - START | 23423 | Start coordinate in the sequence - END | 24117 | End coordinate - GENE | tet(M) | ABR gene - COVERAGE | 1-1920/1920 | What proportion of the gene is in our sequence - COVERAGE_MAP | =============== | A visual represenation - GAPS | 0 | Was there any gaps in the alignment - possible pseudogene? - %COVERAGE | 100.00% | Proportion of gene covered - %IDENTITY | 99.95% | Proportion of exact nucleotide matches
--- a/tool_dependencies.xml Mon Oct 03 01:00:04 2016 -0400 +++ b/tool_dependencies.xml Mon Oct 03 01:25:18 2016 -0400 @@ -1,7 +1,7 @@ <?xml version="1.0"?> <tool_dependency> <package name="abricate" version="0.3"> - <repository changeset_revision="9b32784ea31c" name="package_abricate_0_3" owner="madisonflannery" toolshed="https://testtoolshed.g2.bx.psu.edu" /> + <repository changeset_revision="ce2004a34f14" name="package_abricate_0_3" owner="madisonflannery" toolshed="https://testtoolshed.g2.bx.psu.edu" /> </package> <package name="blast+" version="2.2.31"> <repository changeset_revision="6e4a0aaa3357" name="package_blast_plus_2_2_31" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" />