Skip to content

Commit

Permalink
Added urls for datatype descriptions
Browse files Browse the repository at this point in the history
  • Loading branch information
Neonbluestoplight committed Feb 8, 2024
1 parent 0e13aad commit 0b89cbf
Showing 1 changed file with 5 additions and 5 deletions.
10 changes: 5 additions & 5 deletions lib/galaxy/config/sample/datatypes_conf.xml.sample
Original file line number Diff line number Diff line change
Expand Up @@ -775,10 +775,10 @@
</datatype>
<datatype extension="pdbqt" type="galaxy.datatypes.molecules:PDBQT" display_in_upload="true"/>
<datatype extension="pqr" type="galaxy.datatypes.molecules:PQR" display_in_upload="true" />
<datatype extension="cell" type="galaxy.datatypes.molecules:Cell" display_in_upload="true" description="CASTEP input file contains geometry information, including cell parameters, atomic coordinates, and k-point coordinates and weights. The file consists of lines containing keywords and data blocks, and associated values"/>
<datatype extension="cell" type="galaxy.datatypes.molecules:Cell" display_in_upload="true" description="The .cell file contains geometry information, including cell parameters, atomic coordinates, and k-point coordinates and weights. The file consists of lines containing keywords and data blocks, and associated values" description_url="https://www.tcm.phy.cam.ac.uk/castep/documentation/WebHelp/content/modules/castep/expcastepfilecell.htm"/>
<datatype extension="cif" type="galaxy.datatypes.molecules:CIF" display_in_upload="true" description="CIF or Crystallographic Information File is the standard format for storing crystallographic structural data" description_url="https://www.iucr.org/resources/cif"/>
<datatype extension="xyz" type="galaxy.datatypes.molecules:XYZ" display_in_upload="true"/>
<datatype extension="extxyz" type="galaxy.datatypes.molecules:ExtendedXYZ" display_in_upload="true"/>
<datatype extension="xyz" type="galaxy.datatypes.molecules:XYZ" display_in_upload="true" description="Basic format for atomic positions in a structure" description_url="https://open-babel.readthedocs.io/en/latest/FileFormats/XYZ_cartesian_coordinates_format.html"/>
<datatype extension="extxyz" type="galaxy.datatypes.molecules:ExtendedXYZ" display_in_upload="true" description="Extended XYZ format is an enhanced version of the basic XYZ format that allows extra columns to be present in the file for additonal per-atom properties as well as standardising the format of the comment line to include the cell lattice and other per-frame parameters" description_url="https://wiki.fysik.dtu.dk/ase/ase/io/formatoptions.html#extxyz"/>
<datatype extension="magres" type="galaxy.datatypes.molecules:Magres" display_in_upload="true" description="Ab initio Nuclear Magnetic Resonance file format providing a complete archival and data processing format for the results of first principles calculation of NMR parameters" description_url="https://www.ccpnc.ac.uk/docs/magres"/>
<datatype extension="trr" type="galaxy.datatypes.binary:Trr" display_in_upload="true">
<converter file="mdconvert.xml" target_datatype="xtc"/>
Expand Down Expand Up @@ -960,8 +960,8 @@
<datatype extension="storm.check" type="galaxy.datatypes.text:StormCheck" display_in_upload="true"/>
<datatype extension="ctl.result" type="galaxy.datatypes.text:CTLresult" display_in_upload="true"/>
<!-- CASTEP types -->
<datatype extension="castep" type="galaxy.datatypes.text:Castep" display_in_upload="true" description="numerical output of a CASTEP job in ASCII format"/>
<datatype extension="param" type="galaxy.datatypes.text:Param" display_in_upload="true" description="the param file contains all the input control parameters required to run a CASTEP job. Consists of lines containing keywords and associated values"/>
<datatype extension="castep" type="galaxy.datatypes.text:Castep" display_in_upload="true" description="numerical output of a CASTEP job in ASCII format" description_url="https://www.tcm.phy.cam.ac.uk/castep/documentation/WebHelp/content/modules/castep/expcastepfilecastep.htm"/>
<datatype extension="param" type="galaxy.datatypes.text:Param" display_in_upload="true" description="the param file contains all the input control parameters required to run a CASTEP job. Consists of lines containing keywords and associated values" description_url="https://www.tcm.phy.cam.ac.uk/castep/documentation/WebHelp/content/modules/castep/expcastepfileparam.htm"/>
<datatype extension="den_fmt" type="galaxy.datatypes.text:FormattedDensity" display_in_upload="true" description="formatted electronic density file output by CASTEP containing value of electron density for a grid of points"/>
<!-- ECOLOGY types -->
<datatype extension="bil" type="galaxy.datatypes.binary:Binary" mimetype="application/octet-stream" display_in_upload="true" subclass="true" description="ENVI file with band interleave by line (BIL) format"/>
Expand Down

0 comments on commit 0b89cbf

Please sign in to comment.