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Error was 'No such file or directory' and return code '256' #169

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MAXINELSX opened this issue Aug 19, 2022 · 2 comments
Open

Error was 'No such file or directory' and return code '256' #169

MAXINELSX opened this issue Aug 19, 2022 · 2 comments

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@MAXINELSX
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hi;
so sorry to bother you
my code is:
phyloFlash.pl -lib phyloFlash_db -almosteverything -read1 ST2019_10_8_FDME220033526-1r_HNJLMDSX2_L2_clean_1.fastq -read2 ST2019_10_8_FDME220033526-1r_HNJLMDSX2_L2_clean_2.fastq -readlength 150

and the error is
[08:51:18] running subcommand:
/home/lishuxian/anaconda3/envs/pf/bin/bbmap.sh fast=t
minidentity=0.7 -Xmx20g reads=-1 threads=40 po=f
outputunmapped=f path=/home/lishuxian/138.1
out=phyloFlash_db.bbmap.sam
outm=phyloFlash_db.ST2019_10_8_FDME220033526-1r_HNJLMDSX2_L2_clean_1.fastq.SSU.1.fq
noheader=t ambiguous=all build=1
in=ST2019_10_8_FDME220033526-1r_HNJLMDSX2_L2_clean_1.fastq
bhist=phyloFlash_db.basecompositionhistogram
ihist=phyloFlash_db.inserthistogram
idhist=phyloFlash_db.idhistogram
scafstats=phyloFlash_db.hitstats overwrite=t
outm2=phyloFlash_db.ST2019_10_8_FDME220033526-1r_HNJLMDSX2_L2_clean_1.fastq.SSU.2.fq
pairlen=1200
in2=ST2019_10_8_FDME220033526-1r_HNJLMDSX2_L2_clean_2.fastq
2>phyloFlash_db.bbmap.out
[09:01:19] FATAL: Tool execution failed!.
Error was 'No such file or directory' and return code '256'
Check error log file phyloFlash_db.bbmap.out
Aborting.

[09:01:19] Saving log to file phyloFlash_log_on_error
I used this phyloFlash for over 150 samples, and only one sample showed this error, but my other data pretreatments and other analysis are the same and didn't show an error.
I checked the #95
Though the error code is the same, the reasons are not the same

@Xijiao000
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yes, the same error occurred in my work, how did you solve it? looking forward to your reply!

@Xijiao000
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I've solved this problem, mainly because the fastq file had errors in the compression and I recompressed it then it run fine.

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