Comments (3)
Hi, I've identified the problem, but I don't know how to solve it:
For me, when I try to create an environment conda create -n mobisuiteNew -c bioconda mob_suite
it fetches mob-suite 3.1.4, however it installs biopython 1.79 and then the mob-suite instalation fails.
However, if I try to install first biopython 1.81 and then mob-suit, it keeps solving the environment indefinitely. Moreover, sometimes I get a "conda.core.link:_execute(952)" error message too.
from mob-suite.
I also had similar installation fail. My error message is "ERROR conda.core.link:_execute(745): An error occurred while installing package 'bioconda::mob_suite-3.1.5-pyhdfd78af_0'. " I both tried with mamba too, and it had the same error message.
from mob-suite.
The conda recipe needs to be updated to include the >=1.8 requirement for biopython. This will be corrected in the next release, thank you fo highlighting the issue
from mob-suite.
Related Issues (20)
- [Question] Could MOB-suite be used in metagenomics data HOT 1
- Coverage threshold not applied for tblastn searches HOT 2
- Feature suggestion: Confirm plasmids from assembly graphs
- hostrange() missing 1 required positional argument: 'database_directory' HOT 1
- mob_typer -d with not-yet-initialized db path fails HOT 3
- Feature request: Support `circular=Y` for detecting circularized contigs
- MOB-recon v3.1.7 fails at the biomarker stage. HOT 3
- Mob_Recon fails with compressed input HOT 1
- Pandas version issue when installing using conda/mamba HOT 2
- mob_recon's error: "TypeError: to_csv() got an unexpected keyword argument 'line_terminator'" HOT 5
- Command line to run batch of samples in mob_recon
- A circular contig with replicons from a hybrid assembly is classified as a chromosome
- mob_recon does not reconstruct plasmids sequences HOT 1
- Results depend on the ordering of the input fasta HOT 1
- mob_init fails HOT 1
- TypeError: hostrange() missing 1 required positional argument: 'database_directory' HOT 1
- Installation problem from conda HOT 7
- Cannot find mob-typer accessions on NCBI HOT 4
- Database not installed properly
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