After installing StrainFLAIR as required on your github website and installing seqwish using conda, I tried to run StrainFLAIR on your minimal dataset using the command:
StrainFLAIR.sh index -i data/list_fasta_min.txt -o myproject
Unfortunately, I get the following error, although there is no problem with disk space or permissions and other dependency tools such as prodigal and cd-hit use the same /tmp directory without any problem:
After installing StrainFLAIR as required on your github website and installing seqwish using conda, I tried to run StrainFLAIR on your minimal dataset using the command: StrainFLAIR.sh index -i data/list_fasta_min.txt -o myproject
Unfortunately, I get the following error, although there is no problem with disk space or permissions and other dependency tools such as prodigal and cd-hit use the same /tmp directory without any problem:
GRAPHS CONSTRUCTION mkdir myproject/graphs graphs_construction -s myproject/all_genes_extended.fasta -c myproject/clusters/all_genes_clusters.clstr -o myproject/graphs [seqwish::tempfile]: couldn't create temp directory: /tmp/tmph647__ej/cluster_temp.work/seqwish-z7WwsM [seqwish::tempfile]: couldn't create temp directory: /tmp/tmpiungev29/cluster_temp.work/seqwish-ZHeMAX [seqwish::tempfile]: couldn't create temp directory: /tmp/tmpdlx6kgou/cluster_temp.work/seqwish-ko0LE2
Could you please tell me where the problem is and how to solve it?