search

a-h-b / dadasnake

Amplicon sequencing workflow heavily using DADA2 and implemented in snakemake
GNU General Public License v3.0
45 stars 17 forks source link

Test run fail #18

Open liaochen1988 opened 3 years ago

liaochen1988 commented 3 years ago

Hi,

I am using a Mac and follow the instructions until Step 7 (the test run).

Here are the first several lines of the error output:

"Activating conda environment: /path/to/dadasnake/conda/707773e24eac688b76abbf0176048d28 Not a conda environment: /path/to/dadasnake/conda/707773e24eac688b76abbf0176048d28 mktemp: mkdtemp failed on /var/folders/zg/9bd_wdgn3qg8kl1z973r48mjxx5dnb/T/--tmpdir=/path/to/dadasnake/testoutput/tmp.WAYe0zsC: No such file or directory"

Any clues why it cannot successfully activate the conda environment?

What is also weird is that, when I run the initialization step by "./dadasnake -i config/config.init.yaml", it takes 20s or less, definitely not several minutes. Not sure what is going wrong here.

a-h-b commented 3 years ago

Hi - I think there's an issue with snakemake's use of conda or with conda on the mac. Do you have a linux system you could use? -A

liaochen1988 commented 2 years ago

Okay, I see. But unfortunately, I do not access to linux systems