User: Hotz, Hans-Rudolf

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Posts by Hotz, Hans-Rudolf

<prev • 272 results • page 1 of 28 • next >
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Comment: C: download.file function error
... Have you looked into "Extract reads in Fastq/a format from NCBI SRA" from the toolshed? Regards, Hans-Rudolf ...
written 3 days ago by Hotz, Hans-Rudolf1.6k
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Answer: C: download.file function error
... I suspect this is due to the general problems accessing the NCBI resources today Regards, Hans-Rudolf ...
written 7 days ago by Hotz, Hans-Rudolf1.6k
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Comment: C: Usage of $__app__ for galaxy tool metadata retrieval
... Hi Katherine Have you made any progress on this? and /or can you point me to the location where you have found the line of code Thank you very much Regards, Hans-Rudolf ...
written 7 days ago by Hotz, Hans-Rudolf1.6k
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Answer: A: select line including special content and the following row as well
... Convert your fasta file to a table (using the tool 'FASTA-to-Tabular'), run your selection, and convert the outcome back to fasta (using the tool Tabular-to-FASTA) Hope this helps Regards, Hans-Rudolf ...
written 8 days ago by Hotz, Hans-Rudolf1.6k
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Answer: A: MAGenTA for tn-seq analysis
... Hi Stefano The tools are available in the toolshed for instalation in a local galaxy server. For example: https://toolshed.g2.bx.psu.edu/repository?repository_id=0a61497e0a9ad2d9&changeset_revision=2efae0932a7a However, not every tool available in the toolshed is set up to execute on galaxy ma ...
written 9 days ago by Hotz, Hans-Rudolf1.6k
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Comment: C: sam to bam - Galaxy version 17.01
... ...but is it in your path? Have a look at this similar (?) case: https://biostar.usegalaxy.org/p/19938/ ...
written 8 weeks ago by Hotz, Hans-Rudolf1.6k
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Comment: C: sam to bam - Galaxy version 17.01
... just double checking: is samtools installed? sometimes 'samtools' need to be even in the path. Regards, Hans-Rudolf ...
written 8 weeks ago by Hotz, Hans-Rudolf1.6k
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Comment: C: LDAP/AD auth_conf.xml setting
... Hi Le-Shin Setting the correct options in the auth_conf.xml file is difficult, and the options depend on the settings of your local ldap server. What kind of error do you get in the galaxy log file? Hans-Rudolf ...
written 8 weeks ago by Hotz, Hans-Rudolf1.6k
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Comment: C: LDAP/AD auth_conf.xml setting
... Hi leshin I am not an apache expert, but I guess all the authentication is no longer required in the apache config file, once you have switch to doing the authentication within galaxy based on the settings in the auth_conf.xml file. So I would go step by step. First try to get the authentication w ...
written 8 weeks ago by Hotz, Hans-Rudolf1.6k
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Answer: A: Upgrade Galaxy to new release
... Hi Maki There is no "step by step" guide, since there is just one (or two) step: git checkout release_17.01 && git pull --ff-only origin release_17.01 and restarting the server. (see also: https://galaxyproject.org/admin/get-galaxy/#updating-exiting ) You don't need to worry about y ...
written 9 weeks ago by Hotz, Hans-Rudolf1.6k

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