User: chenzhuod

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chenzhuod30
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4 months ago
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7 months, 2 weeks ago
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Posts by chenzhuod

<prev • 15 results • page 1 of 2 • next >
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Comment: C: How to share a local galaxy workflow to users who are not logged in?
... Hi Jen, Thanks a lot, I have solved it according to your reply. Thanks ! Siyuan ...
written 4 months ago by chenzhuod30
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Custom tool error, results have been output, but galaxy error.
... Hi, I have a custom tool, WGCNA, an R package to construct co-expression network. and in galaxy output file, it has output results. But galaxy shows an error (But it doesn't show what error) : Loading required package: dynamicTreeCut Loading required package: fastcluster Attaching pa ...
custom planeno development tool rna-seq written 4 months ago by chenzhuod30 • updated 4 months ago by Jennifer Hillman Jackson25k
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Rscripts warning, the results error
... Hi, I have an Rscript in my local galay. In running, there is a warning. Galaxy seems don't allow warning exits, because in database file, I could find the results file, and it is true. But in galaxy, it shows error. How to solve? Thanks ...
rscript rna-seq written 4 months ago by chenzhuod30 • updated 4 months ago by Hotz, Hans-Rudolf1.8k
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How to share a local galaxy workflow with users working on a different server
... Hi, I create a workflow in local galaxy, and How can I share it to other users who are not logged in? And how can I add my workflow to left sidebar? Thanks! Siyuan ...
tool-panel rna-seq local workflow sharing written 4 months ago by chenzhuod30 • updated 4 months ago by Jennifer Hillman Jackson25k
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CPC2 biopython error: ImportError: No module named Bio.Seq
... Hi, I add a custom tool, CPC2 (coding potential calculator). When it runs, CPC2 need biopython as requirement. But, it occurs an error: Traceback (most recent call last): File "/home/galaxy/tools/myTools/CPC2-beta/bin/CPC2.py", line 11, in from Bio.Seq import Seq ImportError: No module n ...
rna-seq written 4 months ago by chenzhuod30
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Comment: C: biopython not installed?
... Thx ! But, I add these two requiement, it also could not run. (My custom tool is CPC2, a coding potential calculator), and I have install biopython in /home/software/shed_tools/toolshed.g2.bx.psu.edu/repos/biopython, and my tool and xml are in /home/software/galaxy/tools/myTools/. Need I do some m ...
written 4 months ago by chenzhuod30
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Hisat error: 'NoneType' object has no attribute 'file_name'
... Hi, I create a workflow using local galaxy. PE RNA-Seq data after trimming are mapped against genome by Hisat. The input file is a collection including two PE RNA-Seq. When I run this process in workflow, one of them is error (But actually, it have been done successfully, and I can find the output ...
rna-seq written 4 months ago by chenzhuod30
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Comment: C: biopython not installed?
... Hi Could you please describe your steps in detail? It means how to add the requirement and how to install the biopython in galaxy? Thx ...
written 5 months ago by chenzhuod30
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How to set 'set at runtime'
... Hi, I construct a workflow in local galaxy. and in a custom tool added by myself I want to set a parameter at runtime. How to set it? Thanks, Siyuan ...
tool galaxy select-at-runtime workflow parameter written 6 months ago by chenzhuod30 • updated 6 months ago by Jennifer Hillman Jackson25k
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Comment: C: GMAP error: invalid literal for int() with base 10
... Thanks a lot ! and I add a custom GMAP to my local galaxy, eventually. Another question about GMAP. I want to align genes to different reference sequences. but I'm not sure how many refererence sequences exactly. So, I hope to make a judge. It means if users have one reference, he just can align ge ...
written 6 months ago by chenzhuod30

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