kmc does not write to working_directory

[eaton-lab]

I am on Linux using kmc 3.1.1 installed from conda install kmc -c bioconda. No matter what I try kmc seems to always write the database files into my current directory, instead of into the specified working directory. Am I doing something wrong? Any help is appreciated.

An example is below:

# get test fastq file
wget https://eaton-lab.org/data/40578.fastq.gz

# make a directory where I want the database to be stored
mkdir results

# run kmc telling it to write to the results/ dir
kmc -k21 40578.fastq.gz test results/

# look in results dir
ls results/

... nothing here

# look in current dir
ls

test.kmc_pre
test.kmc_suf

the results are here instead of in the specified working dir.

[eaton-lab]

I'll close this because I see that workdir is only for the location of temp files.

[marekkokot]

:) If you want output in results directory use:

kmc -k21 40578.fastq.gz results/test results/