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Error: chmod: cannot access '.../SCRATCH-1D_1.1/tmp/20190602-010133-829841579409/dataset.pro': No such file or directory #1

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johnnytam100 opened this issue Jun 2, 2019 · 0 comments

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@johnnytam100
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Hi! I am trying to use a neural network called DeepSol to predict the solubility of proteins by their sequences.

Unfortunately, I am stuck at the test run while there is an error message from SCRATCH which is bolded.

(dsol) cltam@cltam-System-Product-Name:~/Desktop/deepsol_trial$ R --vanilla < /home/cltam/Desktop/DSOL_rv0.2-v0.3/sameerkhurana10-DSOL_rv0.2-20562ad/scripts/PaRSnIP.R seq1-8_DPBB_trimmed.fasta /home/cltam/SCRATCH-1D_1.1/bin/run_SCRATCH-1D_predictors.sh newtest 32

...

[SCRATCH-1D_predictions.pl] 1 protein sequence(s) found
[SCRATCH-1D_predictions.pl] generating sequence profiles...
chmod: cannot access '/home/cltam/SCRATCH-1D_1.1/tmp/20190602-010133-829841579409/dataset.pro': No such file or directory

[SCRATCH-1D_predictions.pl] failed generating sequence profiles...
[1] 1
Error in file(file, "r") : cannot open the connection
Calls: PaRSnIP ... PaRSnIP.calc.features.test -> as.vector -> read.fasta -> scan -> file
In addition: Warning message:
In file(file, "r") :
cannot open file '/tmp/RtmpQsM2Kr/tmp3a395e10ade.ss': No such file or directory
Execution halted

I have googled a similar error message but didn't help.

May I have your suggestion on how to deal with the error?

Thanks!

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