Mercurial > repos > peterjc > clinod
changeset 6:77cfe958b5ea draft
v0.0.9 record clinod version
| author | peterjc |
|---|---|
| date | Tue, 01 Sep 2015 06:54:03 -0400 |
| parents | 9485cdfca57e |
| children | f61366a4a14e |
| files | tools/clinod/README.rst tools/clinod/clinod.xml |
| diffstat | 2 files changed, 10 insertions(+), 3 deletions(-) [+] |
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--- a/tools/clinod/README.rst Wed Aug 05 10:58:54 2015 -0400 +++ b/tools/clinod/README.rst Tue Sep 01 06:54:03 2015 -0400 @@ -72,6 +72,7 @@ - Tool definition now embeds citation information. v0.0.8 - Reorder XML elements (internal change only). - Planemo for Tool Shed upload (``.shed.yml``, internal change only). +v0.0.9 - Explicitly record clinod version via ``<version_command>``. ======= ====================================================================== @@ -88,12 +89,12 @@ Planemo commands (which requires you have set your Tool Shed access details in ``~/.planemo.yml`` and that you have access rights on the Tool Shed):: - $ planemo shed_update --shed_target testtoolshed --check_diff ~/repositories/pico_galaxy/tools/clinod/ + $ planemo shed_update -t testtoolshed --check_diff ~/repositories/pico_galaxy/tools/clinod/ ... or:: - $ planemo shed_update --shed_target toolshed --check_diff ~/repositories/pico_galaxy/tools/clinod/ + $ planemo shed_update -t toolshed --check_diff ~/repositories/pico_galaxy/tools/clinod/ ... To just build and check the tar ball, use::
--- a/tools/clinod/clinod.xml Wed Aug 05 10:58:54 2015 -0400 +++ b/tools/clinod/clinod.xml Tue Sep 01 06:54:03 2015 -0400 @@ -1,4 +1,4 @@ -<tool id="clinod" name="Nucleolar localization sequence Detector (NoD)" version="0.0.8"> +<tool id="clinod" name="Nucleolar localization sequence Detector (NoD)" version="0.0.9"> <description>Find nucleolar localization signals (NoLSs) in protein sequences</description> <requirements> <requirement type="binary">java</requirement> @@ -9,6 +9,12 @@ <exit_code range="1:" /> <exit_code range=":-1" /> </stdio> + <version_command> +##The first non-blank line contains the version information, e.g. +##NucleOlar localization sequence Detector v. 1.3b (13 May 2011) +##Question: Why don't we have to escape the dollar here? +java -jar $CLINOD/clinod-1.3.jar | grep -i "^NucleOlar localization sequence Detector" + </version_command> <command> ##The Galaxy Tool Shed installation should define $CLINOD to point at folder ##containing both clinod-1.3.jar and the batchman binary: