User: i-guigon

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i-guigon80
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Posts by i-guigon

<prev • 11 results • page 1 of 2 • next >
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Answer: A: RSEM "Unable to finish job" but output data seem to be OK
... Hello Thank you for your answer. Yes I prepared my input with "RSEM trinity fasta to gene map" and "RSEM prepare reference". I'm currently preparing an instance of Galaxy for a training given next week, and I'm following a (tested) tutorial given by the trainer to test the tools so I'll trust my d ...
written 3 days ago by i-guigon80
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RSEM "Unable to finish job" but output data seem to be OK
... Hi there I am working on a local instance of Galaxy constructed from the docker image galaxy-stable:18.01. Like in this topic (https://biostar.usegalaxy.org/p/14328/) (I don't know if I should have posted there instead of opening a new topic) I have an problem with a job in red saying "Unable to f ...
rsem finish method failed docker written 4 days ago by i-guigon80
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Comment: C: Toolshed tool installed but missing
... Hello. It was probably a temporary problem with CEAS itself. Back then when I tried to install CEAS on another Galaxy instance with the admin panel, it failed. And right now I just created a Galaxy instance from my Docker container and CEAS is present. ...
written 5 months ago by i-guigon80
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Comment: C: TS dependencies install with conda doesn't work on galaxy Docker
... Thank you for your answer. I'll wait for more details :) ...
written 10 months ago by i-guigon80
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Answer: A: TS dependencies install with conda doesn't work on galaxy Docker
... Hmm, well in fact it doesn't work all fine. It's OK for the bedtools, but then I re-launched my Dockerfile with bgruening/galaxy-stable:17.05 and without installing manually my tools (which are bedtools, CEAS, deeptools and MACS2). In the list of installed tools in the Admin panel I have a fair ...
written 10 months ago by i-guigon80
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Answer: A: TS dependencies install will conda doesn't work on galaxy Docker
... I tried another tool (deeptools) on the 17.01 and I had the same error, the tool was not installed. I tried the version 17.05 without modifying galaxy.ini and it worked. So the version 17.05 seems to solve the problem. Thank you both for your help :) ...
written 10 months ago by i-guigon80
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TS dependencies install with conda doesn't work on galaxy Docker
... Hi there I created a Docker image of a Galaxy instance with some tools installed from the toolshed. It worked (almost) perfectly, except that the tools dependencies were not installed, I had to install them "manually" in my Dockerfile, which is quite tedious. I probably missed something with the co ...
docker conda dependencies written 10 months ago by i-guigon80
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Toolshed tool installed but missing
... Hello everyone I've created a Docker image which contains a Galaxy + some tools installed from the toolshed (main) and some manually installed tools. Everything works fine. I've pulled my docker image on several virtual machines (all are Ubuntu 16) (we'll need this for a training). My 3 first VMs ...
docker galaxy ceas toolshed written 11 months ago by i-guigon80
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Answer: A: Output dataset collection is empty
... I found precious informations [here][1] in the "Number of Output datasets cannot be determined until tool run" section which helped me to (more or less) solve my problem (and helped me to understand the "pattern" feature in the same process). I don't have the file universe_wsgi.ini, I found the opt ...
written 15 months ago by i-guigon80
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Comment: C: Output dataset collection is empty
... Thank you for your answer. Unfortunately it still doesn't work. The job fails and here is what I get: Error in file(file, ifelse(append, "a", "w")) : impossible d'ouvrir la connexion Calls: write.table -> file De plus : Warning message: In file(file, ifelse(append, "a", "w ...
written 15 months ago by i-guigon80

Latest awards to i-guigon

Student 15 months ago, asked a question with at least 3 up-votes. For Output dataset collection is empty

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