Hello,
Since begging of week trying to figure a bypass to this issue but unfortunately couldn’t! I would appreciate any suggestions to make it work.
humann --input flt/interleaved/QS1_flt.fastq --threads 7 --output humann_QS1
Output files will be written to: /home/PATH/Biodata/QSSR/Metag/humann_QS1
Running metaphlan …
CRITICAL ERROR: Error executing: /home/PATH/miniconda3/envs/biobakery3/bin/metaphlan /home/PATH/Biodata/QSSR/Metag/flt/interleaved/QS1_flt.fastq -t rel_ab -o /home/PATH/Biodata/QSSR/Metag/humann_QS1/QS1_flt_humann_temp/QS1_flt_metaphlan_bugs_list.tsv --input_type fastq --bowtie2out /home/PATH/Biodata/QSSR/Metag/humann_QS1/QS1_flt_humann_temp/QS1_flt_metaphlan_bowtie2.txt --nproc 7
Error message returned from metaphlan :
Downloading file_list.txt
Downloading file of size: 0.00 MB
0.01 MB 232.33 % 7.29 MB/sec 0 min -0 sec
Downloading MetaPhlAn database
Please note due to the size this might take a few minutes
File /home/PATH/miniconda3/envs/biobakery3/lib/python3.7/site-packages/metaphlan/metaphlan_databases/file_list.txt already present!
Traceback (most recent call last):
File “/home/PATH/miniconda3/envs/biobakery3/bin/metaphlan”, line 10, in
sys.exit(main())
File “/home/PATH/miniconda3/envs/biobakery3/lib/python3.7/site-packages/metaphlan/metaphlan.py”, line 1187, in main
pars[‘index’] = check_and_install_database(pars[‘index’], pars[‘bowtie2db’], pars[‘bowtie2_build’], pars[‘nproc’], pars[‘force_download’])
File “/home/PATH/miniconda3/envs/biobakery3/lib/python3.7/site-packages/metaphlan/metaphlan.py”, line 610, in check_and_install_database
download_unpack_tar(FILE_LIST, index, bowtie2_db, bowtie2_build, nproc)
File “/home/PATH/miniconda3/envs/biobakery3/lib/python3.7/site-packages/metaphlan/metaphlan.py”, line 463, in download_unpack_tar
url_tar_file = ls_f[“mpa_” + download_file_name + “.tar”]
KeyError: ‘mpa_mpa_v30_CHOCOPhlAn_201901.tar’