Eric Deveaud

what about adding `python=3.8.10=h12debd9_8` as dependency (same version used on all other conda environement definition files) to `folding-linux.yml` regards Eric

forget it, won't work....

here are the relelvant part of the makefile used in our install framework ``` SRC= /local/gensoft2/src/SPAdes/SPAdes-3.11.0 EXE= /local/gensoft2/exe/SPAdes/3.11.0 BUILD= $(SRC)/build build: cd $(BUILD) test -d $(BUILD) || $(MKDIR) -p $(BUILD)...

Hello I installed SPADES-3.13.0 from source today and try to run some --test commands. and truspades failed with following error message ``` bigmess:SPAdes/3.13.0 > truspades.py --test Generating truseq dataset from...

my concern is what to download in order to provide the 2 databases `phylophlan` and `amphora2` let say I want to have the databases hosted on `/opt/data/phylophlan/3.02` if I understood...

done that and untared both archive now phylophlan --list-databases show me the DBs ``` [gensoft@db6b0d05cdf9 inst]$ phylophlan --databases_folder /opt/gensoft/data/phylophlan/3.0.2/ --database_list --diversity high Available databases in "/opt/gensoft/data/phylophlan/3.0.2/": amphora2 phylophlan ``` NB...

hello, wik may requires 2 mores informations. bz2 files must be bunzipd and concatenated to respectively `phylophlan.faa` and `amphora2.faa` then indexed with diamond. note, we are providing software and data...

one more question... maybee not... ;-) when using `phylophlan_setup_db` eg `phylophlan_setup_database.py -g s__Staphylococcus_aureus` should'nt the `s__Staphylococcus_aureus` db directory be generated by default in phylophlan_databases ? and why diamond indexation is...

I will provide phylophlan as a module via environnement modules. diamonn version will be fixed in our case (2.6). but I understand the point but I would say that since...

Hello, my first concern is. to have bakta and amrfinder installation as independant as possible. amrfinder db update is handled automaticaly in our setup. I don't want to have divergence...