Mercurial > repos > trinity_ctat > ctat_genome_ref_lib_data_manager_test2
changeset 7:0d121793d62c draft
Deleted selected files
author | trinity_ctat |
---|---|
date | Tue, 12 Dec 2017 15:33:36 -0500 |
parents | 9f878756c679 |
children | e3f3028773cf |
files | data_manager/add_ctat_ref_lib.xml |
diffstat | 1 files changed, 0 insertions(+), 37 deletions(-) [+] |
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--- a/data_manager/add_ctat_ref_lib.xml Tue Dec 12 15:29:45 2017 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,37 +0,0 @@ -<tool id="ctat_genome_ref_lib_data_manager" - name="CTAT Genome Reference Library Data Manager" - version="1.0.0" tool_type="manage_data"> - <description>Retrieve, and/or Specify the location of, a CTAT Genome Reference Library. - </description> - <requirements> - <requirement type="package" version="2.7">python</requirement> - </requirements> - <command detect_errors="default"> - <![CDATA[ - echo "Current directory and contents" && $(pwd) && ls -la * && - echo "Tool directory and contents are" && echo "$__tool_directory__" && ls -la "$__tool_directory__/*" && - python add_ctat_ref_lib.py ${download} - --ref_genome "${genome_name}" - --destination_path "${destination}" - -o "${out_file}" - ]]> - </command> - <inputs> - <param name="download" type="boolean" checked="false" - truevalue="--download" falsevalue="" label="Need to Download? (yes/no)" /> - <param name="genome_name" type="text" label="Reference Genome name" /> - <param name="destination" type="text" label="Local Destination (full path)" /> - </inputs> - <outputs> - <data name="out_file" format="data_manager_json" /> - </outputs> - <help> - Retrieve, and/or specify the location of, a CTAT Genome Reference Library. - When download is true, the file retrieved and processed is https://data.broadinstitute.org/Trinity/CTAT_RESOURCE_LIB/GRCh38_gencode_v26_CTAT_lib_Nov012017.plug-n-play.tar.gz. - Specify the Full Path of the location where the CTAT Reference Library should be placed. - You will need approximately 30GB of space for this library. - If you already have the library, specify the full path of the location where it exists and leave the download box unchecked. - The Reference Genome name may be left empty if downloading. The name will be used as the selector text of the entry in the data table. - For more information on CTAT Genome Reference Libraries, see <a http="https://github.com/FusionFilter/FusionFilter/wiki">FusionFilter</a> - </help> -</tool> \ No newline at end of file