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easybuilders / easybuild-easyconfigs

A collection of easyconfig files that describe which software to build using which build options with EasyBuild.
https://easybuild.io
GNU General Public License v2.0
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CellRanger script fetch-imgt has broken URLs #18913

Open verdurin opened 1 year ago

verdurin commented 1 year ago

The script fetch-imgt in CellRanger no longer works, because it include an http URL that now needs to be https.

Apparently, this will be fixed in the next release.

In the meantime, a workaround is to make the following changes in fetch-imgt:

line 41 should read:

IMGT_GENEDB_URL = "https://www.imgt.org/genedb/GENElect"

and line 161 should read:

e.g. https://www.imgt.org/genedb/GENElect?query=8.1+TRBV&species=Homo+sapiens&IMGTlabel=L-PART1+V-EXON

boegel commented 1 year ago

@verdurin This seems like an easy fix with sed in the CellRanger easyconfigs, no?