User: Seongmin Choi

gravatar for Seongmin Choi
Reputation:
20
Status:
New User
Location:
South Korea
Last seen:
5 months, 1 week ago
Joined:
6 months, 1 week ago
Email:
s***********@gmail.com

Posts by Seongmin Choi

<prev • 6 results • page 1 of 1 • next >
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Local Galaxy error in Create DBKey and Reference Genome
... Hi all, I've setup a local galaxy container using docker, using https://github.com/bgruening/docker-galaxy-stable. When I used "Create DBKey and Reference Genome" (Galaxy version 0.0.2), it was killed with the following error: An error occurred with this dataset: Fatal error: Exit code 137 ...
local galaxy error written 5 months ago by Seongmin Choi20 • updated 5 months ago by Bjoern Gruening5.1k
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planemo t: JobOutputsError occurs, but example_output and script outputs are the same
... Hello, `planemo t` is giving me `JobOutputsError: History item different than expected, difference (using diff):`, when the output from the md5sum results of the example_output and the script output are the same. My XML put in planemo t: python pytabix ...
test galaxy planemo t planemo written 6 months ago by Seongmin Choi20 • updated 6 months ago by Jennifer Hillman Jackson25k
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Answer: C: How can I set a directory as planemo tool_init --example_input?
... **Problem solved.** No worries now. It seems that if I set the type as a "text" for my for the directory input, the test passes. The problem was that `planemo t` recognized the directory input of my script as a "file", not a directory. ...
written 6 months ago by Seongmin Choi20
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Comment: C: How can I set a directory as planemo tool_init --example_input?
... I've edited my reply for more clarity. As shown, the script emits an "Is a directory" error. ...
written 6 months ago by Seongmin Choi20
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Comment: C: How can I set a directory as planemo tool_init --example_input?
... Hello Martin, The following lines are the command and the resulting error. Inside the code, `/dat1/rgkorea/bam_files/rainbow/data/db/snp_db/1000G` is a directory that the python file uses as an input. *** THIS THREAD HAS BEEN EDITED FOR CLARITY IN MAY 16TH 20:20 (KST) *** Code: planemo tool_ ...
written 6 months ago by Seongmin Choi20
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How can I set a directory as planemo tool_init --example_input?
... Hi all, I'm trying to publish a script that takes a directory which includes dozens of SNP VCFs as a planemo example input. However, whenever I run planemo t mytool.xml, I get a IOError: ... Is a directory. Does anyone know how to set a directory as plenemo --example_input? planemo tool_init -- ...
planemo written 6 months ago by Seongmin Choi20

Latest awards to Seongmin Choi

Teacher 5 months ago, created an answer with at least 3 up-votes. For C: How can I set a directory as planemo tool_init --example_input?
Scholar 5 months ago, created an answer that has been accepted. For C: How can I set a directory as planemo tool_init --example_input?

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