Cif2DataParser |
Fully implemented 2016.12.1
see http://journals.iucr.org/j/issues/2016/01/00/aj5269/index.html
Will deliver JSON versions of the data while file reading and Java List/Map structures when
called by
x = getProperty("cifInfo", filename)
Validated using the test-data suite by John Bollinger (John.Bollinger@stjude.org)
found at https://github.com/COMCIFS/cif_api
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Cif2Reader |
Preliminary Cif2 reader.
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CifReader |
A true line-free CIF file reader for CIF files.
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MMCifReader |
mmCIF files are recognized prior to class creation.
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MMCifValidationParser |
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MMTFReader |
JmolData RCSB MMTF (macromolecular transmission format) file reader
see https://github.com/rcsb/mmtf/blob/master/spec.md
full specification Version: v0.2+dev (as of 2016.08.08) is
implemented,including:
reading atoms, bonds, and DSSP 1.0 secondary structure
load =1f88.mmtf filter "DSSP1"
[Note that the filter "DSSP1" is required, since mmtf included DSSP 1.0
calculations, while the standard for Jmol itself is DSSP 2.0.
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MSCifParser |
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MSRdr |
generalized modulated structure reader class for CIF and Jana
-- includes Fourier, Crenel, Sawtooth; displacement, occupancy, and Uij
-- handles up to 6 modulation wave vectors
-- commensurate and incommensurate, including composites
-- not handling _cell_commen_t_section_1
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Subsystem |
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TopoCifParser |
see https://github.com/COMCIFS/TopoCif
Basic idea:
We have TLinks, TNodes, and TAtoms
TLinks each have two TNodes and may also be associated with bridging TAtom
sets.
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