Jellyfish

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Fails to build from source on arm64/ppc64el: tests/generate_sequence

7

See https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=890137 ``` ... FAIL: tests/generate_sequence ============================= Seed: 3141592653 Creating fasta file 'seq10m.fa' Seed: 1040104553 Creating fasta file 'seq1m_0.fa' Creating fasta file 'seq1m_1.fa' Creating fasta file 'seq1m_2.fa' Creating fasta file...

mr-c

Fix a typo: Change peath to path

2

sjackman

I am trying to figure out how to make productive use of the (perl) swig bindings for jellyfish, in particular jellyfish::HashCounter, but there's something I don't understand. Once you've populated...

SteveGoldstein

Source Package has no Configure Script

6

The .tar.gz from release 2.2.6 (available here: https://github.com/gmarcais/Jellyfish/releases) has no configure script to run via the instructions (./configure).

ttbek

Will Jellyfish support protein sequences?

1

Do you have plans for supporting protein sequences?

aziele

libjellyfish-2.0.so.2: cannot open shared object file error

5

So i have been trying to use jellyfish to count kmers of size 4, so i have been using the following command jellyfish count -s 400000 -t 32 -C -m...

npbhavya

Hi. Can we run one command to count/histo/stats without outputting the big mer_counts.jf file? For a 30x human wgs file, the mer_counts.jf file maybe 56G. We can use pipeline to...

wangyugui

cannot install on mac OS El capitan

5

hello I downloaded 2.2.26 tarsal then expanded it then specified compiler $ export CC=gcc-6 CXX=g++-6 then $ ./configure --prefix=$HOME then $ make CC=gcc-6 CXX=g++-6 cd . && /bin/sh /Volumes/SD/jellyfish-2.2.6/missing automake-1.14...

proukakis

Hi my name is Patrick, I'm running **Trinity** in a PBS cluster with 40 nodes (80 CPUs and 100GB RAM). I already tested with small fastq files to perform an...

patrick-douglas

Fails compile on POWER8: rectangular_binary_matrix.hpp impossible register constraint in 'asm'

10

Hi, I am not able to compile Jellyfish on an IBM POWER8 system with gcc. It seems that the raw assembly instructions in rectangular_binary_matrix.hpp are not compatible -- to build...

jlost