comparison README.rst @ 12:da92fef90117 draft

Uploaded v0.0.20 with new citation information

11:236046d1d441

        - Nucleotide database definition aware of MegaBLAST index superheader
v0.0.17 - Add ``maskinfo-asn1`` and ``maskinfo-asn1-binary`` sub-datatypes
          (contribution from Nicola Soranzo)
v0.0.18 - Add retries to BLAST XML merge code.
        - Modify display_data method to allow unit tests to function.
v0.0.19 - Add ``blastdbp`` datatype for BLAST protein domain databases, for use
          with makeprofiledb and rpsblast (contribution from Bjoern Gruening).
        - Add ``pssm-asn1`` datatype for Position Specific Scoring Matrices
          (PSSMs) stored in NCBI's "scoremat" ASN.1 format (usually named
          as *.smp), used as input files for makeprofiledb.
======= ======================================================================


Installation
============

For development, rather than having a local ToolShed running, I currently
use a symlink from ``lib/galaxy/datatypes/blast.py`` to the actual file as
described above.


Licence (MIT)
=============

Permission is hereby granted, free of charge, to any person obtaining a copy
of this software and associated documentation files (the "Software"), to deal

12:da92fef90117

        - Nucleotide database definition aware of MegaBLAST index superheader
v0.0.17 - Add ``maskinfo-asn1`` and ``maskinfo-asn1-binary`` sub-datatypes
          (contribution from Nicola Soranzo)
v0.0.18 - Add retries to BLAST XML merge code.
        - Modify display_data method to allow unit tests to function.
v0.0.19 - Add ``blastdbd`` datatype for BLAST protein domain databases, for use
          with makeprofiledb and rpsblast (contribution from Bjoern Gruening).
        - Add ``pssm-asn1`` datatype for Position Specific Scoring Matrices
          (PSSMs) stored in NCBI's "scoremat" ASN.1 format (usually named
          as ``*.smp``), used as input files for makeprofiledb.
v0.0.20 - Added "NCBI BLAST+ integrated into Galaxy" preprint citation.
======= ======================================================================


Installation
============

For development, rather than having a local ToolShed running, I currently
use a symlink from ``lib/galaxy/datatypes/blast.py`` to the actual file as
described above.


Citation
========

Please cite the following paper (currently available as a preprint):

NCBI BLAST+ integrated into Galaxy.
P.J.A. Cock, J.M. Chilton, B. Gruening, J.E. Johnson, N. Soranzo
bioRxiv DOI: http://dx.doi.org/10.1101/014043 (preprint)


Licence (MIT)
=============

Permission is hereby granted, free of charge, to any person obtaining a copy
of this software and associated documentation files (the "Software"), to deal