arianccbasile

Hello :) is it possible to use protein multifasta as input using the function "doall"? How? Best, Arianna

Hi Silvio, Yes I have this final error which eventually causes the program to stop: ``` Error in gzfile(file, "rb") : cannot open the connection Calls: readRDS -> gzfile In...

``` Loading rhel7/default-peta4 Loading requirement: dot slurm turbovnc/2.0.1 vgl/3.1/64 singularity/current rhel7/global intel/compilers/2017.4 intel/mkl/2017.4 intel/impi/2017.4/intel intel/libs/idb/2017.4 intel/libs/tbb/2017.4 intel/libs/ipp/2017.4 intel/libs/daal/2017.4 intel/bundles/complib/2017.4 cmake/latest P_merdae_carveme.faa DEPRECATION NOTICE: Option '-k' is deprecated. To disable multi-threading...

First I ran: `grep "Nucleotide fasta detected" slurm-30880283.out` And the output is empty. Also `gapseq test` seems fine to me: ``` gapseq version: 1.2 9b30141 linux-gnu #1 SMP Mon Oct...

Hello Silvio, I updated the version but I got a similar error with the file -rxnWeights.RDS not found. I checked the head of the log and also in this case:...

Hi Sivio, I probably found the origin of the problem, it seems the software cannot find the files of the database. Which is curious because it can find them when...

Thx for your suggestion. I will check that code :+1:

I did as you suggeted but using your fork of the mminte code I get some errors in the file "interaction_worker.py" in detail when I run calculate_growth_rates in my code...

I solved creating a new environment with cobra 0.5.2. Quite old version but it worked. Thank you for your kind answer. Sincerely, Arianna