Closed magic2077 closed 3 years ago
Hi Chris,
After reinstall iGUIDE the simulation data worked. However when I run iguide using my real data (ALT iguide, library prep by simple protocol) I got errors:
$ iguide run configs/run2.config.yml
ValueError in line 89 of /home/ubuntu/iGUIDE/Snakefile:
'sampleName' is not in list
File "/home/ubuntu/iGUIDE/Snakefile", line 89, in
Any idea?
Thanks a lot! Lijie
Hi Lijie,
This looks like this could be a sample info file issue, formatting anyways. Would you mind pasting the first two lines of your sampleInfo file here? Additionally, the first part of the config could be helpful is figuring out the issue (just down to the dashed line is enough).
Best, Chris
Hi Chris,
The problem was solved. I used your sample information format and just changed the details by my project and it worked. Thanks a lot!
Lijie
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On Jan 24, 2021, at 5:16 AM, Chris Nobles notifications@github.com wrote:
Hi Lijie,
This looks like this could be a sample info file issue, formatting anyways. Would you mind pasting the first two lines of your sampleInfo file here? Additionally, the first part of the config could be helpful is figuring out the issue (just down to the dashed line is enough).
Best, Chris
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Hi Chris,
Iguide data analysis pipeline is very useful for us. Thanks a lot for posting the pipeline in github!
I ran the simulation test but got error information as follows:
[Wed Oct 14 07:08:55 2020] Error in rule align: jobid: 109 output: /home/ubuntu/iGUIDE/analysis/simulation/process_data/align/iGXA.R1.bin2.psl log: /home/ubuntu/iGUIDE/analysis/simulation/logs/iGXA.R1.bin2.blat.log (check log file(s) for error message) shell:
Removing output files of failed job align since they might be corrupted: /home/ubuntu/iGUIDE/analysis/simulation/process_data/align/iGXA.R1.bin2.psl [Wed Oct 14 07:10:11 2020] Finished job 116. 50 of 125 steps (40%) done
Could you please help me solve the problem?
Thanks a lot!