Hello,

I think this is a new issue. Trying to install qiime on the WSL interface. Followed the miniconda install procedure then ran test and had two failures. Any ideas?

(qiime1) pitrack01@LAPTOP-4B9AGN4O:/etc/python2.7$ print_qiime_config.py -t

System information

     Platform:      linux2

Python version: 2.7.12 |Continuum Analytics, Inc.| (default, Jul 2 2016, 17:42:40) [GCC 4.4.7 20120313 (Red Hat 4.4.7-1)] Python executable: /home/pitrack01/anaconda3/envs/qiime1/bin/python

QIIME default reference information

For details on what files are used as QIIME's default references, see here: https://github.com/biocore/qiime-default-reference/releases/tag/0.1.3

Dependency versions

      QIIME library version:        1.9.1
       QIIME script version:        1.9.1

qiime-default-reference version: 0.1.3 NumPy version: 1.10.4 SciPy version: 0.17.1 pandas version: 0.18.1 matplotlib version: 1.4.3 biom-format version: 2.1.5 h5py version: Not installed. qcli version: 0.1.1 pyqi version: 0.3.2 scikit-bio version: 0.2.3 PyNAST version: 1.2.2 Emperor version: 0.9.51 burrito version: 0.9.1 burrito-fillings version: 0.1.1 sortmerna version: SortMeRNA version 2.0, 29/11/2014 sumaclust version: SUMACLUST Version 1.0.00 swarm version: Swarm 1.2.19 [Mar 1 2016 23:41:10] gdata: Installed.

QIIME config values

For definitions of these settings and to learn how to configure QIIME, see here: http://qiime.org/install/qiime_config.html http://qiime.org/tutorials/parallel_qiime.html

                 blastmat_dir:      None
  pick_otus_reference_seqs_fp:      /home/pitrack01/anaconda3/envs/qiime1/lib/python2.7/site-packages/qiime_default_reference/gg_13_8_otus/rep_set/97_otus.fasta
                     sc_queue:      all.q
  topiaryexplorer_project_dir:      None
 pynast_template_alignment_fp:      /home/pitrack01/anaconda3/envs/qiime1/lib/python2.7/site-packages/qiime_default_reference/gg_13_8_otus/rep_set_aligned/85_otus.pynast.fasta
              cluster_jobs_fp:      start_parallel_jobs.py

pynast_template_alignment_blastdb: None assign_taxonomy_reference_seqs_fp: /home/pitrack01/anaconda3/envs/qiime1/lib/python2.7/site-packages/qiime_default_reference/gg_13_8_otus/rep_set/97_otus.fasta torque_queue: friendlyq jobs_to_start: 1 slurm_time: None denoiser_min_per_core: 50 assign_taxonomy_id_to_taxonomy_fp: /home/pitrack01/anaconda3/envs/qiime1/lib/python2.7/site-packages/qiime_default_reference/gg_13_8_otus/taxonomy/97_otu_taxonomy.txt temp_dir: /tmp/ slurm_memory: None slurm_queue: None blastall_fp: blastall seconds_to_sleep: 1

QIIME base install test results

..F.....F

FAIL: test_cluster_jobs_fp (main.QIIMEDependencyBase) cluster_jobs_fp is set to a valid path and is executable

Traceback (most recent call last): File "/home/pitrack01/anaconda3/envs/qiime1/lib/python2.7/site-packages/qiime-1.9.1-py2.7.egg-info/scripts/print_qiime_config.py", line 224, in test_cluster_jobs_fp "cluster_jobs_fp set to an invalid file path or is not in $PATH: %s" % fp) AssertionError: cluster_jobs_fp set to an invalid file path or is not in $PATH: start_parallel_jobs.py

====================================================================== FAIL: test_uclust_supported_version (main.QIIMEDependencyBase) uclust is in path and version is supported

Traceback (most recent call last): File "/home/pitrack01/anaconda3/envs/qiime1/lib/python2.7/site-packages/qiime-1.9.1-py2.7.egg-info/scripts/print_qiime_config.py", line 336, in test_uclust_supported_version % ('.'.join(map(str, acceptable_version)), version_string)) AssertionError: Unsupported uclust version. 1.2.22 is required, but running Segmentation fault (core dumped) .

Ran 9 tests in 0.131s

biocore / qiime

installing qiime in Windows System for Linux (WSL) #2176