Giter VIP home page Giter VIP logo

pengkenlim / lstrap-denovo Goto Github PK

View Code? Open in Web Editor NEW
1.0 2.0 1.0 1.68 MB

LSTrAP-denovo is an easy-to-use pipeline to assemble and annotate transcripts for species without genome / genomic annotations using publicly available RNA-seq data.

License: MIT License

Python 100.00%
bioinformatics clustering-algorithm gene-expression pfam-annotation rna-seq rna-seq-pipeline transcriptomics-assembly unsupervised-machine-learning

lstrap-denovo's People

Contributors

pengkenlim avatar

Stargazers

avatar

Watchers

avatar avatar

Forkers

pythseq

lstrap-denovo's Issues

SOAPdenovo make failed with GCCcore-11.3.0

I had trouble installing SOAPdenovo through the setup.py script. It failed to build (see error below). It would be great to have this pipeline available through a Conda package/Docker/Singularity for portability.

/sw/auto/rocky8.6/epyc3/software/binutils/2.38-GCCcore-11.3.0/bin/ld: splitReps.o:(.bss+0x0): multiple definition of `kmerZero'; arc.o:(.bss+0x0): first defined here
/sw/auto/rocky8.6/epyc3/software/binutils/2.38-GCCcore-11.3.0/bin/ld: splitReps.o:(.bss+0x20): multiple definition of `b_ban'; arc.o:(.bss+0x20): first defined here
/sw/auto/rocky8.6/epyc3/software/binutils/2.38-GCCcore-11.3.0/bin/ld: cannot find -lm: No such file or directory
/sw/auto/rocky8.6/epyc3/software/binutils/2.38-GCCcore-11.3.0/bin/ld: cannot find -lrt: No such file or directory
/sw/auto/rocky8.6/epyc3/software/binutils/2.38-GCCcore-11.3.0/bin/ld: cannot find -lpthread: No such file or directory
/sw/auto/rocky8.6/epyc3/software/binutils/2.38-GCCcore-11.3.0/bin/ld: cannot find -lc: No such file or directory
collect2: error: ld returned 1 exit status
make: *** [Makefile:76: SOAPdenovo] Error 1

Recommend Projects

  • React photo React

    A declarative, efficient, and flexible JavaScript library for building user interfaces.

  • Vue.js photo Vue.js

    🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.

  • Typescript photo Typescript

    TypeScript is a superset of JavaScript that compiles to clean JavaScript output.

  • TensorFlow photo TensorFlow

    An Open Source Machine Learning Framework for Everyone

  • Django photo Django

    The Web framework for perfectionists with deadlines.

  • D3 photo D3

    Bring data to life with SVG, Canvas and HTML. 📊📈🎉

Recommend Topics

  • javascript

    JavaScript (JS) is a lightweight interpreted programming language with first-class functions.

  • web

    Some thing interesting about web. New door for the world.

  • server

    A server is a program made to process requests and deliver data to clients.

  • Machine learning

    Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.

  • Game

    Some thing interesting about game, make everyone happy.

Recommend Org

  • Facebook photo Facebook

    We are working to build community through open source technology. NB: members must have two-factor auth.

  • Microsoft photo Microsoft

    Open source projects and samples from Microsoft.

  • Google photo Google

    Google ❤️ Open Source for everyone.

  • D3 photo D3

    Data-Driven Documents codes.