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Nesvilab / FragPipe

A cross-platform proteomics data analysis suite
http://fragpipe.nesvilab.org
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Got a "FileNotFoundError" when using the split DB #653

Closed huiyinc closed 6 months ago

huiyinc commented 2 years ago

Describe the bug

Hi Fengchao,

I got a "FileNotFoundError" when using the split DB. Attached is my log file. Can you please take a look and let me know if there is anything I miss? Thanks a lot!

Huiyin

log_2022-04-18_18-39-52.txt

fcyu commented 2 years ago

Hi Hui-Yin,

FileNotFoundError: [WinError 206] 檔名或副檔名太長。 I think it is because the command is too long for Windows.

FragPipe splits the files into different batches if the command is too long. With split database, I guess the additional split_peptide_index_tempdir directory makes the command longer than the limit again.

@guoci , we need to figure out a smart idea to solve this problem. Maybe we can put all files' paths into a file like what we did for ProteinProphet.

Best,

Fengchao

guoci commented 2 years ago

Yes, use the file list in a file method, and remove the workaround code in FragPipe.

huiyinc commented 2 years ago

Hi Fengchao and Guo Ci,

Thanks for the prompt reply. I will try to shorten the folder/file names, hoping it solve the issue. Please let me know if there is an updated release. I am happy to give it a try.

Huiyin

Guo Ci @.***> 於 2022年4月18日 下午10:55 寫道：



Yes, use the file list in a file method, and remove the workaround code in FragPipe.

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