User: fiebig

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fiebig30
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Posts by fiebig

<prev • 18 results • page 1 of 2 • next >
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Comment: C: How to access datacollection metadata (input names of elements)
... Ok, problem fixed by using the Readgroup information. Nevertheless, I would like to know how to access single elements metadata of a collection. I just realised, I can't even change the names of single elements via the interface. Only the name of the collection itself can be changed. (just wan't to ...
written 5 months ago by fiebig30
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Comment: C: How to access datacollection metadata (input name)
... Using the {name}, the name of the job in the history was addressed. The actual softlink wasn't created - maybe the name was to long^^ Still, I wonder, how samtools can pass the input name to VCF format. ln -s /data/filer/galaxy_DB/files/002/dataset_2517.dat 'Map with BWA-MEM on data 39 (mapped rea ...
written 5 months ago by fiebig30
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How to access datacollection metadata (input names of elements)
... Hi, I need help with a tool I'm working on. It takes a data collection list of bam files as input. It is part of a workflow, that starts with a list of fastq files. The .sh script contains a pipeline that enables multi-threading for samtools mpileup and bcftools. It takes the number of cores, the ...
samtools tool development metadata data collection written 5 months ago by fiebig30
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Comment: C: Workflow sharing menu not working
... Hi Dannon, I glad you can afford some time for the problem. 2) The instance was installed on June 26 - so its, not that old. I hope this helps with the versions. 1) The actual worklflow contains several of my own scripts, but I have set up a small workflow, which is also part of "full" workflow. I ...
written 5 months ago by fiebig30
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Workflow sharing menu not working
... Hello, I have serious problems to download, view or export workflows of my local 16.04 instance. The "Download" and "Create SVG" buttons simply do not work - no error message here. The "View" problem returns the following error: Module cgi:1034 in escape >> s = s.replace("&", "&") ...
local svg workflow download sharing written 5 months ago by fiebig30 • updated 5 months ago by Dannon Baker3.6k
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Comment: C: Restrict user access to some BLAST DBs
... Hallo Hans, good idea, thx :) I will suggest this to the scientist so they can decide on the safety aspect. ...
written 6 months ago by fiebig30
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Restrict user access to some BLAST DBs
... Hello, I'm working on a local Galaxy instance. Our group has some confidential reference genomes, which should only be readable for a small group of users. Is there any possibility to apply user-based filters on .loc files/reference data just like it is done for the toolbox filters? Regards, Ann ...
filter reference files written 6 months ago by fiebig30
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Server error while using embedded workflow in page editor
... Hi, I want to create a page to illustrate a workflow. I placed some galaxy objects, a history and one workflow. Both paragraphs were placed in the editor. While viewing the page, the history object acted as expected, but for the workflow object I could not use the buttons "Show or hide workflow cont ...
published page workflow written 6 months ago by fiebig30
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Comment: C: Error installing/using 'data_manager_fetch_genome_dbkeys_all_fasta'
... The actual “problem” is not solved yet, but I have been able to supply trackster with the dbkeys/seq-/len- data via the different .loc files. It might be more convenient to use the data managers, but I’m fine with the import now. Unfortunately I encountered another problem using trackster. While I ...
written 6 months ago by fiebig30
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Error installing/using 'data_manager_fetch_genome_dbkeys_all_fasta'
... Hello, in order to prepare some reference genomes for visualisation module, I have installed the following data manger: 'data_manager_fetch_genome_dbkeys_all_fasta'. No errors were reported during the installation. When I clicked "Local data" the data managers were present. My previously populated ...
software error written 7 months ago by fiebig30

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