Dear John,
Thanks for the update.
I still feel we should look into integrating this into the EasyBuild
framework, but I haven't been able to find any time whatsoever for this...
regards,
Kenneth
On 07/03/2018 00:26, Dey, John F wrote:
I have released an improved version of easy_update. It is available
via github: https://github.com/FredHutch/easybuild-life-sciences/ In
the Scripts directory. The README.md file in the scripts directory is
the man page for easy_update. Please file and issue with our repo if
you encounter problems.
Many bugs have been fixed and there are a few new features.
--search [package name] easy_update will search a repository for a
single package on the command line. The output is in a format that
can be cut/pasted into and easyconfig file.
--meta Output all metadata about a package from a repository. This is
handy for debugging issues with a package.
--pyver, --rver, --biocver; These three flag are to be used with the
Search feature. Either use pyver for PyPi or rver and biocver for
searching CRAN and BioConductor.
At the FredHutch we have combined R packages and BioCondutor packages
into a single R package. To implement having packages from multiple
repositories in one easyconfig the variable; biocver must be defined.
I hope you can find this tool useful,
*John Dey*
*HPC Operations*
SciComp Computing
*O* _206.667.4308_
*M* _360.649.2731_
[email protected] <mailto:[email protected]>
SciComp Office Hours
Wed. 10-noon M4-B102
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<http://www.fredhutch.org/>
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N., Mail Stop J4-402
Seattle, WA 98109
*fredhutch.org <http://www.fredhutch.org/>*
