Mercurial > repos > sanbi-uwc > data_manager_fetch_refseq
changeset 14:1977080c99ec draft
planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit 687fed3e6ffed745baf5d6241ee82f2bd9671256-dirty
| author | sanbi-uwc |
|---|---|
| date | Sat, 08 Sep 2018 03:24:20 -0400 |
| parents | dd9f976e9d97 |
| children | 01ea53470921 |
| files | data_manager/fetch_refseq.xml data_manager_conf.xml |
| diffstat | 2 files changed, 7 insertions(+), 2 deletions(-) [+] |
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--- a/data_manager/fetch_refseq.xml Sat Sep 08 03:08:02 2018 -0400 +++ b/data_manager/fetch_refseq.xml Sat Sep 08 03:24:20 2018 -0400 @@ -1,4 +1,4 @@ -<tool id="data_manager_fetch_refseq" name="RefSeq data manager" version="0.0.14" tool_type="manage_data"> +<tool id="data_manager_fetch_refseq" name="RefSeq data manager" version="0.0.15" tool_type="manage_data"> <description>Fetch FASTA data from NCBI RefSeq and update all_fasta data table</description> <requirements> <requirement type="package" version="3">python</requirement>
--- a/data_manager_conf.xml Sat Sep 08 03:08:02 2018 -0400 +++ b/data_manager_conf.xml Sat Sep 08 03:24:20 2018 -0400 @@ -10,7 +10,12 @@ <move type="file"> <source>${path}</source> <target base="${GALAXY_DATA_MANAGER_DATA_PATH}"><![CDATA[ - #set release_num = str($dbkey).split()[1] + #set name_parts = str($dbkey).split('.') + #if len($name_parts) == 3: + #set release_num = $name_parts[1] + #else + #set release_num = 'UNKNOWN_RELEASE' + #fi refseq/${release_num}/${value}.fasta ]]></target> </move>