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Created by: szypanther

Hi iquasere, Sorry to trouble you again, Here I still encounter another new problem after running almost 2 days later. .... 5500000 alignment record pairs processed. 5600000 alignment record pairs processed. 5700000 alignment record pairs processed. 5800000 alignment record pairs processed. 5834173 alignment pairs processed. [Tue Feb 2 15:08:24 2021] Finished job 9. 1 of 5 steps (20%) done

[Tue Feb 2 15:08:24 2021] rule join_information: input: output/Annotation/uniprotinfo.tsv, output/Annotation/Sample/aligned.blast, output/Annotation/Sample/reCOGnizer_results.xlsx, output/Metatranscriptomics/mtname.readcounts, output/Annotation/mgname.readcounts output: output/MOSCA_Protein_Report.xlsx, output/MOSCA_Entry_Report.xlsx, output/Metatranscriptomics/expression_matrix.tsv jobid: 5 threads: 12

Job counts: count jobs 1 join_information 1 python /media/zyshen/work/MOSCA/MOSCA-1.2.2/workflow/join_information.py -e output/experiments.tsv -t 12 -o output -if tsv -nm TMM 2021-02-02 07:08:28: Joining data for sample: Sample Traceback (most recent call last): File "/media/zyshen/work/MOSCA/MOSCA-1.2.2/workflow/join_information.py", line 147, in Joiner().run() File "/media/zyshen/work/MOSCA/MOSCA-1.2.2/workflow/join_information.py", line 58, in run sheet_names = pd.ExcelFile(recognizer_filename).sheet_names File "/media/zyshen/miniconda3/envs/mosca-1.2.2/lib/python3.6/site-packages/pandas/io/excel/_base.py", line 867, in init self._reader = self._enginesengine File "/media/zyshen/miniconda3/envs/mosca-1.2.2/lib/python3.6/site-packages/pandas/io/excel/_xlrd.py", line 22, in init super().init(filepath_or_buffer) File "/media/zyshen/miniconda3/envs/mosca-1.2.2/lib/python3.6/site-packages/pandas/io/excel/_base.py", line 353, in init self.book = self.load_workbook(filepath_or_buffer) File "/media/zyshen/miniconda3/envs/mosca-1.2.2/lib/python3.6/site-packages/pandas/io/excel/_xlrd.py", line 37, in load_workbook return open_workbook(filepath_or_buffer) File "/media/zyshen/miniconda3/envs/mosca-1.2.2/lib/python3.6/site-packages/xlrd/init.py", line 170, in open_workbook raise XLRDError(FILE_FORMAT_DESCRIPTIONS[file_format]+'; not supported') xlrd.biffh.XLRDError: Excel xlsx file; not supported [Tue Feb 2 15:08:28 2021] Error in rule join_information: jobid: 0 output: output/MOSCA_Protein_Report.xlsx, output/MOSCA_Entry_Report.xlsx, output/Metatranscriptomics/expression_matrix.tsv

RuleException: CalledProcessError in line 232 of /media/zyshen/work/MOSCA/MOSCA-1.2.2/workflow/Snakefile: Command 'set -euo pipefail; python /media/zyshen/work/MOSCA/MOSCA-1.2.2/workflow/join_information.py -e output/experiments.tsv -t 12 -o output -if tsv -nm TMM' returned non-zero exit status 1. File "/media/zyshen/miniconda3/envs/mosca-1.2.2/lib/python3.6/site-packages/snakemake/executors/init.py", line 2340, in run_wrapper File "/media/zyshen/work/MOSCA/MOSCA-1.2.2/workflow/Snakefile", line 232, in __rule_join_information File "/media/zyshen/miniconda3/envs/mosca-1.2.2/lib/python3.6/site-packages/snakemake/executors/init.py", line 568, in _callback File "/media/zyshen/miniconda3/envs/mosca-1.2.2/lib/python3.6/concurrent/futures/thread.py", line 56, in run File "/media/zyshen/miniconda3/envs/mosca-1.2.2/lib/python3.6/site-packages/snakemake/executors/init.py", line 554, in cached_or_run File "/media/zyshen/miniconda3/envs/mosca-1.2.2/lib/python3.6/site-packages/snakemake/executors/init.py", line 2352, in run_wrapper Exiting because a job execution failed. Look above for error message Shutting down, this might take some time. Exiting because a job execution failed. Look above for error message Complete log: /media/zyshen/work/MOSCA/MOSCA-1.2.2/.snakemake/log/2021-02-02T143849.506822.snakemake.log

you can see the size of mtname_bowtie2_report.txt is zero. -rw-rw-r-- 1 zyshen zyshen 630 2月 2 08:27 mtname.log -rw-rw-r-- 1 zyshen zyshen 13M 2月 2 08:36 mtname.readcounts -rw-rw-r-- 1 zyshen zyshen 4.5G 2月 2 08:27 mtname.sam -rw-rw-r-- 1 zyshen zyshen 0 2月 2 08:26 mtname_bowtie2_report.txt

any suggestion? Thanks!