nonpareil

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Heya, I am assuming this is a simple bug, but just to be sure I will ask here. The arrows for indicating the sequencing effort seem to be placed wrongly...

bramvandijk88

input files for Nonpareil 3

2

Hello, Thanks for developing such an excellent tool. For paired-end reads, how should I make the input file for Nonpareil 3? taking merged file of paired-end reads as input? or...

INFINITY1993

Can't process gzipped fastq

12

Hi, I'm just getting started with Nonpareil, thanks for your work. I'm unable to process my gzipped fastq. If I first uncompress the file, it processes as expected. The error:...

ohthetrees

Not reproducible results

5

Hello, I have a question regarding the reproducibility of the results: I ran `nonpareil` on the same input using the same command line and got slightly different results for both...

VGalata

Obtaining diversity estimate

3

Thanks for the great documentation and software design. Installation and running was super easy. One question - how to I obtain the nonpareil sequence diversity estimate? I may have missed...

snayfach

(For others who come across this: this is an issue with an edge use case of Nonpareil; I’m otherwise very happy with the program and trust it for higher coverage...

tylerbarnum

Input from stdin

2

Is it possible to get the input file from standard input? For example, all my data is compressed and it would be more convenient to just pipe gunzip output to...

koopkaup

Hi, I see some strange behavior, where the some of the output files don't have the prefix assigned via `-b`: ``` $ ls C1825_AAGACGA_L006.nobg.fastq $ nonpareil -s C1825_AAGACGCA_L006.nobg.fastq -f fastq...

boulund

MPI version installation error

1

Dear authors, It is me again :) The install for the regular version of `nonpareil`. I am now attempting the install of `nonpareil-mpi`. However, below is the error that I...

shaman-narayanasamy

make nonpareil-mpi failed: enveomics/SeqReader.o: No such file or directory

1

Hi, Came across this running `make nonpareil-mpi`: ``` cd enveomics/ && make nonpareil-mpi make[1]: Entering directory '/tmp/guix-build-nonpareil-2.4.1-1.72ce3c9e.drv-0/source/enveomics' mpic++ -DENVEOMICS_MULTI_NODE universal.cpp -c -Wall -std=c++11 mpic++ -DENVEOMICS_MULTI_NODE multinode.cpp -c -Wall -std=c++11 mpic++...

wwood