log file:
Start Ublastx one : Tue Jun 7 11:57:42 2022
Check the files processed : Tue Jun 7 11:57:42 2022
Process files and generate shell scripts for running : Tue Jun 7 11:57:42 2022
running of tasks: Tue Jun 7 11:57:42 2022
4 Merge extracted fasta and update meta data : Tue Jun 7 11:57:42 2022
Finsh Ublastx one: Wed Jun 8 01:08:41 2022
wrong run
and with empty extracted.fa and meta_data_online.txt.
Might be because i delete *.fa before end of analysis in the /media/ubuntu/d/data/meta/ZY/data_rmhost/fq directory?
Could you help me to check what is wrong? Thanks a lot.
When i re-run without deleting the .fa files before the end of analysis. It seems works. But new issue the mata_online files with empty 16s number, and warning:
Use of uninitialized value $samplerlen{"1"} in multiplication () at /home/ubuntu/miniconda2/envs/args_oap/lib/python3.7/site-packages/args_oap/bin/merge_extracted_fa_update_metadate.v2.3.pl line 100.
Use of uninitialized value $samplerlen{"1"} in multiplication (*) at /home/ubuntu/miniconda2/envs/args_oap/lib/python3.7/site-packages/args_oap/bin/merge_extracted_fa_update_metadate.v2.3.pl line 107.......
I found the answer:
I find the reason, the erro is caused by wrong “meta-data.txt” file format，there should be four columns of information instead of three, the previous analysis failed missing the fourth column of information: ReadLength. my fault.
time args_oap stage_one -i /media/ubuntu/d/data/meta/ZY/data_rmhost/fq -m /media/ubuntu/d/data/meta/ZY/ARG_OAP3/meta_data.txt -o /media/ubuntu/d/data/meta/ZY/ARG_OAP3 -n 20
log file: Start Ublastx one : Tue Jun 7 11:57:42 2022
wrong run and with empty extracted.fa and meta_data_online.txt. Might be because i delete *.fa before end of analysis in the /media/ubuntu/d/data/meta/ZY/data_rmhost/fq directory?
Could you help me to check what is wrong? Thanks a lot.
When i re-run without deleting the .fa files before the end of analysis. It seems works. But new issue the mata_online files with empty 16s number, and warning: Use of uninitialized value $samplerlen{"1"} in multiplication () at /home/ubuntu/miniconda2/envs/args_oap/lib/python3.7/site-packages/args_oap/bin/merge_extracted_fa_update_metadate.v2.3.pl line 100. Use of uninitialized value $samplerlen{"1"} in multiplication (*) at /home/ubuntu/miniconda2/envs/args_oap/lib/python3.7/site-packages/args_oap/bin/merge_extracted_fa_update_metadate.v2.3.pl line 107.......
I found the answer:
I find the reason, the erro is caused by wrong “meta-data.txt” file format，there should be four columns of information instead of three, the previous analysis failed missing the fourth column of information: ReadLength. my fault.
Thanks a lot Mi