problems with qiime fragment-insertion sepp

User Support
1

Dear Qiime developers,
When I run the following code, I always get an error.

time qiime fragment-insertion sepp \

    --i-representative-sequences ./rep-seqs.qza \
    --i-reference-database sepp-refs-gg-13-8.qza \
    --o-tree ./tree.qza \
    --o-placements ./tree_placements.qza \
    --p-threads 0 \
    --p-debug

The error is displayed as follows：

Plugin error from fragment-insertion:

Command '['run-sepp.sh', '/tmp/qiime2-archive-753tnz0j/ee11e6ab-d1b5-4859-829b-c5a6d1522c98/data/dna-sequences.fasta', 'q2-fragment-insertion', '-x', '0', '-A', '1000', '-P', '5000', '-a', '/tmp/qiime2-archive-jo9s8lrm/a14c6180-506b-4ecb-bacb-9cb30bc3044b/data/aligned-dna-sequences.fasta', '-t', '/tmp/qiime2-archive-jo9s8lrm/a14c6180-506b-4ecb-bacb-9cb30bc3044b/data/tree.nwk', '-r', '/tmp/qiime2-archive-jo9s8lrm/a14c6180-506b-4ecb-bacb-9cb30bc3044b/data/raxml-info.txt', '-b', '1']' returned non-zero exit status 1.

Debug info has been saved to /tmp/qiime2-q2cli-err-v5ly8nx5.log

Do you have any idea how to solve this issue ?

Thanks a ton

2

Hi @lys,

I'm not entierly sure if this is the issue, but you have set:

This should be at least 1... as in 1 cpu thread.

-Mike

3

Thanks！

But I replaced it with 9, the result is also the same as the above error.

4

Okay, just wanted to sanity-check. Here here are other forum posts on this issue. I suggest reading through these:

5

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