qiime error join read
Hello
I try to run qiime to join reads, with the script join_paired_ends.py, with the next command:
join_paired_ends.py -f SM000720-1_S1_L001_R1_001.fastq -r SM000720-1_S1_L001_R2_001.fastq -o join_joined_SM00720 -j 30 -p 10
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but the program has an error
##error ##
/miniconda3/envs/qiime1/lib/python2.7/site-packages/burrito-0.9.1-py2.7.egg/burrito/util.py", line 468, in _error_on_missing_application
burrito.util.ApplicationNotFoundError: Cannot find fastq-join. Is it installed? Is it in your path?
The program is in path currently, what happened?
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Why is this a
tutorialpost? It is a question. Also, please use the formatting bar (especially thecodeoption) to present your post better. I've done it for you this time.Sorry, I modified the question
When you say program, you are referring to
fastq-join? Make sure it was installed with miniconda. I'm not really sure how conda would handle different python versions and a program installed outside of conda. It should play nice but who knows. Also if you can provide the output ofecho $PATHthat would be great.