Xauthority in your home directory? If you do can you try deleting it and then logging out and in again. Hello, Im trying to download this and run it in my terminal, but I just get command not found Skip to content. Star New issue. Jump to bottom. Copy link. You need to get the compiled version if you want to run the program Any ideas on what I am missing?
Works perfect - Thanks. Many thanks!! Hi there, I am trying to install fastqc 0. I think this link is GUI version, I want to command line version. Thank you. Thank you! Does sudo work? What does sudo whoami say? That would certainly fit with the "Permission denied" error.
That would certainly fit with the "Permission denied" error ; thanks! Thanks for the answer. What's new in FastQC 0. Fixed a documentation error in the duplicated sequences plot. Fixed a thread safety bug when processing multiple files in a single session which caused the program not to exit when all processing had in fact completed. Read the full changelog. The kallisto alignment free expression estimation tool is installed below simply by downloading an archive with wget , unpacking the archive with tar , and testing the binary to ensure it runs on our system.
Installation type: download precompiled binary. Installation type: use pip. Multiqc, a tool for assembling QC reports is a python package that can be installed using the python package manager pip. Installation type: download java jar file. Picard is a rich tool kit for BAM file manipulation that is installed below simply by downloading a jar file.
The jar file is tested using Java, a dependency that must also be installed it should already be present in many systems.
Installation type: compile from source code using cmake and make. Citation: bioRXiv: Also, linking the R-patched bin directory into your PATH may cause weird things to happen, such as man pages or git log to not display. NOTE: This has been pre-installed for you, so these commands can be skipped. Installation type: add bioconductor libraries to an R installation.
Verified by. Verified on. Hidden category: Entry. Navigation menu Personal tools Create account Log in. This is a bugfix release which resolves some issues with the program; We removed the native look and feel from the linux application since it's horribly broken Fixed a hang if a run terminated from an out-of-memory error Bundle a suitable JRE with the OSX app build Fixed a corner case where adapters could occasionally be double-counted Updated the fast5 parser to account for the newer format multi-read oxford nanopore fast5 files Fixed problems if analysing a completely blank file.
Assets 2 Source code zip Source code tar. Other changes in this release are: Fixed a bug which prematurely abandoned the adapter content plot when long custom adapters were being used. Fixed a bug in the parsing of tile numbers on some illumina sequencers Added some new Clontech sequences to the contaminants list.
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