Daylight Programs
Reference Manual

autorules - automatically generate SMARTS rules for rubicon
canonicalizeSmiles - retrieves the canonical SMILES string of a molecule
clogp - calculate logp for molecules
cmr - calculate Molar refractivity for molecules
convert - set of programs for the interconversion of MDL connection table-based
convertStructure - converts structures and data between MDL and Daylight formats
dayevict - evict users from a Thor/Merlin server or database
daymessage - send message to Thor/Merlin server or database users
dayprop - calculate physical properties for molecules
dcgi_smi2gif - convert SMILES to GIF format
deriveSDClusters - generates clusters of molecules
deriveScaffold - generates a scaffold from a group of molecules
desaltSmiles - removes salts from a SMILES string
executeprogram - enables use of an external process
filter_fingertalk - program object to generate fingerprint data
fingerprint - generate fingerprint data for SMILES TDTs
generateRTable - generates Rtable information from a scaffold-based cluster
getClogp - calculates logp and mr for molecules
getDepiction - generates depictions of molecules and reactions
getProperties - calculates physical properties for molecules
getTautomer - determines tautomers for molecules
getTransform - applies a specified transform to molecules
jarpat - perform Jarvis-Patrick clustering
jpscan - calculate summary statistics for Jarvis-Patrick clustering
kmodes - calculate K-modes clustering
list_indexes - Dump Daycart indexes to file for recreation
listclusters - sort and reformat Jarvis-Patrick clustering data
mcl - Merlin Control Language processor
mergeneighbors - merge nearneighbors output files
merlindbping - verify the existence of database
merlinload - load a database into Merlin server's memory
merlinls - ask a server to list its databases
merlinping - verify the existence of a server
merlinserver - database network server
merlinsmartstalk - merlin parallel SMARTS searches
merlinwho - list current users of servers and databases
merserv_monitor - monitor server in an xterm(1) window
mol2smi - converts a connection table-based file into a SMILES-based file.
nearneighbors - calculate nearest neighbors
normalizeSmiles - normalizes structure using a set of transforms
osversion - return machine type and software release
prado - print a depiction object
rd2smarts - converts a query connection table-based reaction file into a
rd2smi - converts a connection table-based reaction file into a SMILES-based file.
rd2smirks - converts a query connection table-based reaction file into a
rubicon - rule-based invention of conformations
sd2smarts - converts a query connection table-based file into a SMARTS-based file.
sdcluster - perform scaffold-directed clustering
sgi4d - invoke program on SGI X Window system
showclusters - display Jarvis-Patrick clusters and statistics
smi2mol - converts a smiles-based structure file into a connection table-based file.
smi2rd - converts a SMILES-based file into a connection table-based file.
smi2tdt - convert .smi format to .tdt format
spherex - calculate sphere exclusion clustering
sthorman - tty-oriented Thor/Merlin management
tablet - print table representing a merlin hitlist
tautomer - calculate tautomers for molecules
tdtcat - Format TDT files in dump or list format
tdtcount - count bytes, dataitems and TDTs in a TDT file
testlicense - verify that a Daylight license is valid.
thorchange - change database properties
thorcrunch - report and recover empty space ("garbage")
thordbinfo - ask a Thor server to list its databases
thordbping - verify the existence of a database
thordelete - delete TDTs from a Thor database
thordestroy - destroy a Thor database
thordiff - print differences between two Thor databases
thordump - directly dump the contents of a THOR database
thorfilters - Filter programs for Thor/Merlin management
thorlist - dump the contents of a Thor database to a TDT file
thorload - load data into a Thor database
thorlookup - look up specific TDTs in a Thor database
thorls - ask a server to list its databases
thormake - create a Thor database and set its properties
thorping - verify the existence of a server
thorserv_monitor - monitor server in an xterm(1) window
thorserver - database network server
thorwho - list current users of servers and databases
treetops - print a Thor Datatree (TDT)
xvmerlin - Merlin client program using XView windows interface
xvmerlin4d - invoke program on SGI X Window system
xvpcmodels - pcmodels program using the XView window interface
xvpcmodels4d - invoke program on SGI X Window system
xvthor - Thor client program using XView window interface
xvthor4d - invoke program on SGI X Window system