On Wed, Feb 25, 2015 at 5:33 PM, Peter Cock <p.j.a.c...@googlemail.com> wrote: > Hi all, > > Using either the legacy upload tool, or the new upload widget, the > following FTP URL *appears* to load into Galaxy correctly giving > a green history entry. > > However, on closer inspection it is an empty file with this peep text: > > Unable to fetch > ftp://ftp.sanger.ac.uk/pub/pathogens/Bursaphelenchus/xylophilus/Assembly-v1.2/BurXv1.2.supercontigs.fa.gz > [Errno ftp error] 550 pathogens: No such file or directory > > Clearly this should have been treated as a failure (red history entry). > > Should I file this as a bug on Trello? > > It seems there is a problem with the Sanger folder permissions which > trips up Galaxy and curl (but does not bother Firefox and wget): > > $ curl -O > ftp://ftp.sanger.ac.uk/pub/pathogens/Bursaphelenchus/xylophilus/Assembly-v1.2/BurXv1.2.supercontigs.fa.gz > % Total % Received % Xferd Average Speed Time Time Time > Current > Dload Upload Total Spent Left Speed > 0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0 > curl: (9) Server denied you to change to the given directory > > Using curl -v for verbose mode it tries to walk the path (as per the > https://www.ietf.org/rfc/rfc1738.txt standard) and fails with the > command "CWD pathogens" matching the Galaxy error.
The reply from Sanger was that "pathogens" is actually an alias for "project/pathogens" and as a workaround this longer URL can be used with curl or Galaxy: ftp://ftp.sanger.ac.uk/pub/project/pathogens/Bursaphelenchus/xylophilus/Assembly-v1.2/BurXv1.2.supercontigs.fa.gz The problem with Galaxy failing to detect the FTP error with the shorter URL remains: ftp://ftp.sanger.ac.uk/pub/pathogens/Bursaphelenchus/xylophilus/Assembly-v1.2/BurXv1.2.supercontigs.fa.gz Regards, 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/