Open craftlord15 opened 5 months ago
I think the link https://ftp.ncbi.nih.gov/pub/taxonomy/taxdump_archive/taxdmp_2022-08-01.zip has been change can you correct this one thanks.
nextflow run deng-lab/viroprofiler -r main -profile podman --mode "setup" --max_cpus 12 --max_memory 16.GB --max_time 100.h RROR ~ Error executing process > 'VIROPROFILER:SETUP:DB_VREFSEQ' Caused by: Process `VIROPROFILER:SETUP:DB_VREFSEQ` terminated with an error exit status (4) Command executed: # Download NCBI taxonomy if [ ! -d /root/viroprofiler/taxonomy/taxdump ]; then mkdir dl_taxdump cd dl_taxdump wget -O taxdump.zip https://ftp.ncbi.nih.gov/pub/taxonomy/taxdump_archive/taxdmp_2022-08-01.zip unzip taxdump.zip # wget ftp://ftp.ncbi.nih.gov/pub/taxonomy/taxdump.tar.gz #tar -zxvf taxdump.tar.gz mkdir -p /root/viroprofiler/taxonomy/taxdump mv names.dmp nodes.dmp delnodes.dmp merged.dmp /root/viroprofiler/taxonomy/taxdump cd .. rm -rf dl_taxonkit else echo "NCBI taxonomy already exists" fi if [ ! -d /root/viroprofiler/taxonomy/mmseqs_vrefseq ]; then wget -O /root/viroprofiler/taxonomy/mmseqs_vrefseq.tar.gz "https://zenodo.org/record/7044674/files/mmseqs_vrefseq.tar.gz" tar -zxvf /root/viroprofiler/taxonomy/mmseqs_vrefseq.tar.gz -C /root/viroprofiler/taxonomy rm /root/viroprofiler/taxonomy/mmseqs_vrefseq.tar.gz cd /root/viroprofiler/taxonomy/mmseqs_vrefseq mmseqs createdb refseq_viral.faa refseq_viral mmseqs createtaxdb refseq_viral tmp --ncbi-tax-dump ../taxdump --tax-mapping-file virus.accession2taxid --threads 1 mmseqs createindex refseq_viral tmp --threads 1 rm -rf tmp else echo "vRefSeq database already exists" fi Command exit status: 4 Command output: (empty) Command error: --2024-03-27 00:20:21-- https://ftp.ncbi.nih.gov/pub/taxonomy/taxdump_archive/taxdmp_2022-08-01.zip Resolving ftp.ncbi.nih.gov (ftp.ncbi.nih.gov)... failed: Temporary failure in name resolution. wget: unable to resolve host address ‘ftp.ncbi.nih.gov’ Work dir: /root/work/1b/256f7ece6f13b689a9a52a29dfc957 Tip: you can try to figure out what's wrong by changing to the process work dir and showing the script file named `.command.sh` -- Check '.nextflow.log' file for details
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Description of the bug
I think the link https://ftp.ncbi.nih.gov/pub/taxonomy/taxdump_archive/taxdmp_2022-08-01.zip has been change can you correct this one thanks.
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Relevant files
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System information
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