Difference between revisions of "List of output files for PATHSAMPLE"
import>Mp466 |
import>Mp466 |
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'''Input Structures''' |
'''Input Structures''' |
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− | start.<n> input coordinate files for OPTIM generated via pathsample |
+ | start.<n> -- input coordinate files for OPTIM generated via pathsample |
− | finish.<n> input coordinate files for OPTIM generated via pathsample |
+ | finish.<n> -- input coordinate files for OPTIM generated via pathsample |
'''Input''' |
'''Input''' |
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− | pathdath - file for pathsample |
+ | pathdath -- file for pathsample |
− | pathdata.change - file read in during pathsample run to change parameters whilst the job is running |
+ | pathdata.change -- file read in during pathsample run to change parameters whilst the job is running |
− | odata.start - OPTIM data file for initial frequency calc for start file |
+ | odata.start -- OPTIM data file for initial frequency calc for start file |
− | odata.finish - OPTIM data file for initial frequency calc for finish file |
+ | odata.finish -- OPTIM data file for initial frequency calc for finish file |
− | odata.connect - OPTIM data file for CONNECT run |
+ | odata.connect -- OPTIM data file for CONNECT run |
− | odata.new.<n> - files generated by OPTIM for restarting from that point |
+ | odata.new.<n> -- files generated by OPTIM for restarting from that point |
− | odata.<n> - OPTIM input file created by pathsample |
+ | odata.<n> -- OPTIM input file created by pathsample |
− | min.data.info.<n> - coordinate input files for input minima created by OPTIM for PATHSAMPLE |
+ | min.data.info.<n> -- coordinate input files for input minima created by OPTIM for PATHSAMPLE |
− | path.info.data.<n> - min.ts.min triple with frequencies, and structures created by OPTIM for PATHSAMPLE |
+ | path.info.data.<n> -- min.ts.min triple with frequencies, and structures created by OPTIM for PATHSAMPLE |
− | nodes.info - processor addresses for a distributed memory machine |
+ | nodes.info -- processor addresses for a distributed memory machine |
'''Output''' |
'''Output''' |
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− | OPTIM.connect.<n> |
+ | OPTIM.connect.<n> -- output from OPTIM runs |
min.A, min.B and min.data -- A, B and intermediate minima, respectively |
min.A, min.B and min.data -- A, B and intermediate minima, respectively |
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ts.data -- transition states |
ts.data -- transition states |
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− | <file>.fastest |
+ | <file>.fastest -- GT data for the fastest connection of the database |
− | <file>.regrouped |
+ | <file>.regrouped -- data after regrouping into free energy groups |
− | <file>.retained |
+ | <file>.retained -- stationary point data retained after pruning via RETAINSP keyword |
− | <file>.removed |
+ | <file>.removed -- stationary point data retained after pruning via REMOVESP keyword |
− | points.min, points.ts |
+ | points.min, points.ts -- unformatted direct access file versions of min.data and ts.data |
path.<n>.xyz -- path coordinates for path <n> in Xmakemol format produced with debugging on |
path.<n>.xyz -- path coordinates for path <n> in Xmakemol format produced with debugging on |
Revision as of 22:24, 1 August 2008
Input Structures
start.<n> -- input coordinate files for OPTIM generated via pathsample
finish.<n> -- input coordinate files for OPTIM generated via pathsample
Input
pathdath -- file for pathsample
pathdata.change -- file read in during pathsample run to change parameters whilst the job is running
odata.start -- OPTIM data file for initial frequency calc for start file
odata.finish -- OPTIM data file for initial frequency calc for finish file
odata.connect -- OPTIM data file for CONNECT run
odata.new.<n> -- files generated by OPTIM for restarting from that point
odata.<n> -- OPTIM input file created by pathsample
min.data.info.<n> -- coordinate input files for input minima created by OPTIM for PATHSAMPLE
path.info.data.<n> -- min.ts.min triple with frequencies, and structures created by OPTIM for PATHSAMPLE
nodes.info -- processor addresses for a distributed memory machine
Output
OPTIM.connect.<n> -- output from OPTIM runs
min.A, min.B and min.data -- A, B and intermediate minima, respectively
ts.data -- transition states
<file>.fastest -- GT data for the fastest connection of the database
<file>.regrouped -- data after regrouping into free energy groups
<file>.retained -- stationary point data retained after pruning via RETAINSP keyword
<file>.removed -- stationary point data retained after pruning via REMOVESP keyword
points.min, points.ts -- unformatted direct access file versions of min.data and ts.data
path.<n>.xyz -- path coordinates for path <n> in Xmakemol format produced with debugging on
path.xyz -- total path coordinates in Xmakemol format produced with debugging on
energies -- ?????
Misc
ts.attempts -- records TS where short cut paths have already been completed
commit.data -- committor probabilities for the minima
pairs.data -- record of connection attempts already performed
min.done -- record of minima from UNTRAP runs
redopoints -- ?????
extractedmin.crd -- ????
Epath -- ????
--mp466 10:31, 8 July 2008 (BST)