running sintax classification and utax

[Liakumat]

I recently emailed you, please see below query:

Issue No// 1
I am using linux on windows and have tried to run utax in ubuntu but I have a 64 bit see erro below:

./usearch8.0.1623_i86linux32/usearch8.0.1623_i86linux32 -utax PoJ100_S196_L001.q20.fq -db ../analyses/viridiplantae_all_2014.utax.udb -utax_rawscore -tt ../analyses/viridiplantae_all.utax.tax -utaxout filename1.utax
usearch v8.0.1623_i86linux32, 4.0Gb RAM (7.8Gb total), 16 cores
(C) Copyright 2013-15 Robert C. Edgar, all rights reserved.
http://drive5.com/usearch

License: personal use, non-transferrable

00:01 183Mb  100.0% Rows
00:01 184Mb Reading pointers...done.
00:01 218Mb Reading seqs...

./usearch8.0.1623_i86linux32/usearch8.0.1623_i86linux32 -utax PoJ100_S196_L001.q20.fq -db ../analyses/viridiplantae_all_2014.utax.udb -utax_rawscore -tt ../analyses/viridiplantae_all.utax.tax -utaxout filename1.utax

---Fatal error---
ReadStdioFile failed, attempted 55187803 bytes, read 51307735 bytes, errno=2

Issue No// 2:

for f in ../raw/filtered/*.fq; do out=$(basename $f .fq); usearch -sintax $f           -db precomputed/viridiplantae_all_2014.sintax.fa           -tabbedout $out.sintax.txt           -strand both           -sintax_cutoff 0.90; done

This produced output files the txt output files- *.sintax.txt, however to use the utax count.pl below i renamed the files to *.utax

for i in ../*.utax; do     BASE=$(basename $i .utax);     perl ../../code/count_taxa_utax.pl --in $i --cutoff 20 > $BASE.count; done

I am getteting the following error

x.pl line 139, <IN> line 18896.
Argument "k:Viridiplantae_33090(1.0000" isn't numeric in numeric ge (>=) at ../../code/count_taxa_utax.pl line 139, <IN> line 18897.
Argument "k:Viridiplantae_33090(1.0000" isn't numeric in numeric ge (>=) at ../../code/count_taxa_utax.pl line 139, <IN> line 18898.
Argument "k:Viridiplantae_33090(1.0000" isn't numeric in numeric ge (>=) at ../../code/count_taxa_utax.pl line 139, <IN> line 18899.
Argument "k:Viridiplantae_33090(1.0000" isn't numeric in numeric ge (>=) at ../../code/count_taxa_utax.pl line 139, <IN> line 18900.

Any code to use sintax.txt output file to count reads and follow the tutorial

[iimog]

Sorry for the late response. I tried to replicate your errors. So far, I could not. The error message for 1 does not indicate, that it is a 32/64 bit issue. More likely, something is wrong with your input file. Can you verify, that it is not corrupted?

[iimog]

For 2: which version of usearch are you using here?