Mercurial > repos > lionelguy > prokka
changeset 10:2720b1e27a9c draft
Added dependency for infernal
| author | lionelguy |
|---|---|
| date | Fri, 06 Sep 2013 05:38:49 -0400 |
| parents | 37e2aeda27f4 |
| children | f2cc11ac2006 |
| files | prokka.xml readme.rst tool_dependencies.xml |
| diffstat | 3 files changed, 4 insertions(+), 5 deletions(-) [+] |
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--- a/prokka.xml Fri Sep 06 02:50:44 2013 -0400 +++ b/prokka.xml Fri Sep 06 05:38:49 2013 -0400 @@ -6,7 +6,7 @@ <requirement type="package" version="2.60">prodigal</requirement> <requirement type="package" version="0.1">package_barrnap_0_1</requirement> <!-- <requirement type="package" version="4.1">signalp</requirement> --> - <!-- <requirement type="package" version="3.0">infernal</requirement> --> + <requirement type="package" version="1.1rc4">infernal</requirement> <requirement type="package" version="3.1b1">hmmer</requirement> <requirement type="package" version="2.2.26+">blast+</requirement> <requirement type="package">tbl2asn</requirement>
--- a/readme.rst Fri Sep 06 02:50:44 2013 -0400 +++ b/readme.rst Fri Sep 06 05:38:49 2013 -0400 @@ -9,7 +9,6 @@ Note ---- -- **infernal** >= 1.1rc4 is an optional dependency to find non-coding RNAs. An executable is shipped with prokka. - **SignalP** >= 3.0 is an optional dependency to find signal peptides. For licensing reasons, no automatic dependency is managed. - **tbl2asn** >= 21.0 is required. This dependency is not managed here. The reason is that versions are increasing very rapidly. The software can be downloaded from the NCBI ftp site ftp://ftp.ncbi.nih.gov/toolbox/ncbi_tools/converters/by_program/tbl2asn/. - **BioPerl** >= 1.6 is required, but the dependency is not managed here, although it might in future.
--- a/tool_dependencies.xml Fri Sep 06 02:50:44 2013 -0400 +++ b/tool_dependencies.xml Fri Sep 06 05:38:49 2013 -0400 @@ -15,9 +15,9 @@ <package name="package_barrnap_0_1" version="0.1"> <repository changeset_revision="a41418a3bd38" name="barrnap" owner="simon-gladman" toolshed="http://toolshed.g2.bx.psu.edu" /> </package> - <!--<package name="infernal" version="1.1rc4"> - <repository name="package_infernal_1_1rc4" owner="iuc" /> - </package> --> + <package name="infernal" version="1.1rc4"> + <repository changeset_revision="b9cc978bc83b" name="package_infernal_1_1rc4" owner="iuc" toolshed="http://toolshed.g2.bx.psu.edu" /> + </package> --> <package name="prokka" version="1.7"> <install version="1.0"> <actions>