Sure I could probably step up to the plate on that one. I haven't reported it to NCBI - it didn't twig that this was an exit code > 0 . I'll sneak it into BOSC codefest maybe!
d. Hsiao lab, BC Public Health Microbiology & Reference Laboratory, BC Centre for Disease Control 655 West 12th Avenue, Vancouver, British Columbia, V5Z 4R4 Canada ________________________________________ From: Peter Cock [p.j.a.c...@googlemail.com] Sent: Saturday, July 04, 2015 8:11 AM To: Dooley, Damion Cc: galaxy-...@lists.bx.psu.edu Subject: Re: [galaxy-dev] Cosmetic Makeblastdb error promulgated through wrapper Hi Damion, The NCBI have a bug here - if it is just a warning, it shouldn't say "Error". We had something similar before: Error: (1431.1) FASTA-Reader: Warning: FASTA-Reader: Ignoring FASTA modifier(s) found because the input was not expected to have any. In that case the NCBI fixed it, see https://github.com/peterjc/galaxy_blast/issues/40 Did you (or Keith Bradnam) report this to the NCBI? In the short term we can probably tweak the regex so that these "Error: *: Warning: *" lines on stderr are not treated as errors? Do you fancy working on this? Peter ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/