Hi,
I am encountering a strange error when running qiime longitudinal linear-mixed-effects with individual feature IDs. For all feature IDs beginning with a letter the command runs fine, however if the feature ID begins with a number I get the following error:
Plugin error from longitudinal:
invalid syntax (, line 1)
Debug info has been saved to /tmp/qiime2-q2cli-err-lrhc59gy.log (or other file)
I have attached some of the debug files incase they help.
qiime2-q2cli-err-lrhc59gy.log.txt (3.0 KB)
qiime2-q2cli-err-32rrmec8.log.txt (3.0 KB)
qiime2-q2cli-err-lrhc59gy.log.txt (3.0 KB)
I have also pasted the loop I am running at the bottom of the post, however as I mentioned before all features beginning with a letter worked fine and produced a correct output qzv, whilst all beginning with a number failed.
Thank you,
Jen
for i in {'3de5f525094ec393ec1767ae0d16de8d','6e5ebd83a964b0bee237cd9b221aedce','f22088afb95783a66916935ad3be16ee','18d1d3003cc423b568ba5b5ccb433023','f257f8bb0d9b4aabfa6ccd6ec84b256d','7b58a25f42f2aa49626ddffe0e69ae7b','a2ed5d5b89e82d3e6289e05cbbdf31a8','f3028e6e91b09bef83702f3ed00265b1','6089e3455fdfb31efad4063931738ce7','3bb9edc70f70cd01c186d491c64be80f','d7f3bdeea12378c23ab4dfa79d47aca5','2d2ba432de65fdeac8600f615ad13175','1ad106850823904ec6b0677ec26a6bf4','e8c6023a59abc1f9a47712651fecf706','2e749ec8309ac6c24c13f39cdbc9e3ad','2bece401405f1792df34008de663fcfc','fa8ad273584a7d5f644b2aaa70acf1fa','64c48d34bfc2889dfe1788d653ecda6d','a81eeef79efbeed60fe844aa4e71619b','dae0dac699437281dbcdf38b98735d0f','91dd9ad005a3e7c18545584be1a3ba33','e85b9d0833bdc9dbc76e217b4e40fca'}
do
qiime longitudinal linear-mixed-effects
--m-metadata-file Metadata/VMR_sample_metadata.txt
--i-table QIIME2_analysis/dada2_output/table_filtered_MC_relative_frequency.qza
--p-metric "$i"
--p-state-column Week_number
--p-individual-id-column Calf_ID
--p-group-columns Milk_replacer_ID
--o-visualization QIIME2_analysis/GNEISS_analysis/sig_balance_taxonomies/lme_y51_features/"$i"_week_number_milk_replacer.qzv;
done
