Mercurial > repos > jasmine_amir > sra_tools
diff README.rst @ 0:878e5d4becef
planemo upload
author | jasmine_amir |
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date | Thu, 02 Feb 2023 18:11:05 -0500 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/README.rst Thu Feb 02 18:11:05 2023 -0500 @@ -0,0 +1,32 @@ +The Galaxy tool wrappers contained in this tool shed repository rely on software developed by +the NCBI: https://github.com/ncbi/sra-tools. + +NCBI Sequence Read Archive Toolkit: https://trace.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?view=software + +# Installation of Aspera connect ascp binary + +The sra-tools suite is ready to benefit from increased transfer speed and reliability by using Aspera Connect ascp. +To benefit, download the ascp commandline client, and place ascp and the required ssh keys into a PATH accessible to galaxys job handler. + +A convenience package for linux and OS X is available at https://toolshed.g2.bx.psu.edu/view/mvdbeek/package_ascp_3/e109f0ec22c3 . +It suffices to copy the contents of the $INSTALL_DIR/bin into PATH. + +Alternatively go to http://downloads.asperasoft.com/connect2/ . + +Aspera connect is not provided by the IUC due to its closed-source nature. + +# Firewall settings for highspeed transfer + +To benefit from increased transfer speeds using ascp3 your local firewall must permit UDP data transfer in both +directions on ports 33001-33009 for the following IP ranges: + + 130.14.*.* + + 165.112.*.* + +The firewall must also allow ssh traffic outbound to NCBI. +The wrapper will fall back to http download if these requirements are not met. + +CONTROLLED-ACCESS DATA + +Encrypted, controlled-access data is not supported.