Fernando Puente-Sánchez

Re-create the conda environment with the new version and run `configure_nodb.pl` to link the new installation to the database you already downloaded. You can find more details in the ReadMe.

Closing due to lack of activity, feel free to reopen.

Hi @DanCWB Could you share the `A6_Sed/SqueezeMeta_conf.pl` with us? Also, in case you still have it, the line you used for calling SqueezeMeta in the first place? (not the restart,...

> A work around is to call each step by their name, so not SqueezeMeta.pl -p (foldername of project) --restart -step (number) Ah, so this was a sequential project! Then...

Ah, sorry. So the workaround happens when you explicitly request restart from a certain step, instead of letting SqueezeMeta.pl figure it out on its own?

I see that you call it with `SqueezeMeta.pl -p ./ --restart` Does the same problem happen if you go one directory below and call it with `SqueezeMeta.pl -p A7_sed --restart`?

Can reproduce

Ok, let's see if this works. 1) Edit `SqueezeMeta.pl` (locate it first with `which SqueezeMeta.pl`) 2) Near L318 there should be two lines close to one another: - `my $rootdir=$projectdir;`...

Glad to hear! I'll leave this open until we actually commit the fix to the repo

Did you have any other process running apart from SqueezeMeta? Can you run `/home/poorna/anaconda3/envs/SqueezeMeta_Oct2022/SqueezeMeta/bin/diamond blastp -q /home/poorna/meta_plastic_trial/Plastic_trial_merged/results/03.Plastic_trial_merged.faa -p 12 -d /home/poorna/sakcham/database/db/nr.dmnd -e 0.001 --id 40 -f tab -b 2 -o...