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milaboratory / mixcr

MiXCR is an ultimate software platform for analysis of Next-Generation Sequencing (NGS) data for immune profiling.
https://mixcr.com
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Persisting "Writing clones" during assemble #1847

Closed lordim closed 2 weeks ago

lordim commented 3 weeks ago

Hello,

I'm currently trying to test run the mixcr analyze 10x-sc-xcr-vdj preset on a pair of reads, and the execution was running fine until it reached the assemble stage, where it continued to print "Writing Clones" at the same percentage:

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Does this mean that the pipeline is still running, or does it mean that it's at a dead end? Each of the read files is around 1GB, so it should not take too long, but the "Writing Clones" has been going on for a few hours now.

mizraelson commented 3 weeks ago

Hi, can you please try the latest develop version and let me know if it solved the issue.

lordim commented 3 weeks ago

Hello, is there a way to install it through CLI? I'm working on a remote server. Also, mine seems to be a pretty recent version, unless the version you mentioned is even newer:

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mizraelson commented 3 weeks ago

Yes, you can download it, unzip and just use as java -jar /path/to/mixcr.jar analyze ...

mizraelson commented 2 weeks ago

Hi, did it help?

lordim commented 2 weeks ago

Hello, yes, I think it seems to work for now! I'll post another issue if some other error pops up. Thank you!