ea-utils

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Can we have a complete tutorial for ea-utils with demo data

gens8094

Would you be willing to tag a new release?

snehring

Fails to compile: can't locate t/test-prep.pl, test errors

4

Hi, I've cloned your repo and attempted to build with: make This fails with the following messages at the end of the run: >g++ -O3 -I. fastq-lib.cpp tidx/tidx-lib.cpp -o varcall...

plantarum

make FAIL tests on Mac OS X Sierra

1

prove -j 4 t ===( 2;0 1/? 1/? 0/? )========================================= # Failed test 'Files equal: tmp/join.t.EVgRz/test-phred.out == out/join/test-phred.out' # at t/test-prep.pl line 48. ===( 13;1 6/? 7/? 0/? )=========================================# Looks...

mkazanov

sam-stats doesn't support -o and -O option

4

``` What steps will reproduce the problem? $ /software/ea-utils/ea-utils-svn/clipper/sam-stats -O test.sam-stats test.bam /software/ea-utils/ea-utils-svn/clipper/sam-stats: invalid option -- 'O' Unknown option `-O'. Usage: sam-stats [options] [file1] [file2...filen] Version: 1.37.657 ... What is...

GoogleCodeExporter

I used the gtf2bed tool to convert the gtf file to 12-column bed file. The score is all 0. I was wondering if it's correct or not? Thanks, Lida

lida-R

/biotools/biotools/eautils/1.04.807/bin/fastq-mcf -o /dlmp/qa/runs/NEUMUT/NEUMUT_092520-mgt85-1_LIB-200925-056_IL4141-P1_HHGW7BCX3/samples/20-CZJNX-A-13-00/extended/20-CZJNX-A-13-00_S2_L001_R2_001.fastq.gz /dlmp/qa/scripts/trim-adapters/onco3.fa /dlmp/qa/runs/NEUMUT/NEUMUT_092520-mgt85-1_LIB-200925-056_IL4141-P1_HHGW7BCX3/samples/20-CZJNX-A-13-00/extended/pretrim_20-CZJNX-A-13-00_S2_L001_R2_001.fastq.gz standard output: Scale used: 2.2 Phred: 33 Floating point exception

shengbing

Hi. I'm interested to test performance of fastqMultx as part of an in-house only commercial pipeline. I have not been able to find a LICENSE.txt or other licensing note on...

JAttig

Dear All, I am trying to install ea-utils without sudo permission. I download the source folder and tried make command g++ -O3 -I. fastq-lib.cpp tidx/tidx-lib.cpp -o varcall varcall.cpp -lgsl -lgslcblas...

MonicaSteffi

my adapter sequence is: GATCTGAATTCAGTGGCACAGCAGTTAGG My sequence to be trimmed is GATCTGAATTCAGTGGCACAGCAGTTAGGGAACGCGTAAGGCTGTATAGATCTGGAATGAACTGGCC after trimming, I expect to get: GAACGCGTAAGGCTGTATAGATCTGGAATGAACTGGCC but I got AACGCGTAAGGCTGTATAGATCTGGAATGAACTGGCC it seems besides trimming my adapter sequence,...

aiminy