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|
*----------------------------------------------------------------------*
* Burkhard Rost May, 1998 version 0.1 *
* EMBL/LION http://www.embl-heidelberg.de/~rost/ *
* D-69012 Heidelberg rost@embl-heidelberg.de *
* changed: Aug, 1998 version 0.2 *
*----------------------------------------------------------------------*
************************************************************************
* This file contains the maximal parameters for executing multiple *
* runs of secstron. The specific parameter and variables for a *
* particular run are written in parsecstron resp parcollsec. *
************************************************************************
IMPLICIT NONE
* **** *
**** * ***PARAMETERS*** * ***
* ********** *
* * *
************************************************************************
C--------------------------------------------------
C---- numbers -----
C--------------------------------------------------
C---- -----
C---- -----
C---- -----
C---- architecture of network -----
C---- -----
INTEGER NUMINMAX,NUMOUTMAX,NUMHIDMAX,
+ NUMNEIGHMAX,NBIOLOBJMAX,NCODEUNTMAX,NHISTOMAX
C---- -----
C---- units (global) -----
C---- -----
INTEGER NUNITS_LENGTH,NUNITS_DISTCAPS
C---- -----
C---- reading databank -----
C---- -----
INTEGER NUMPROTMAX,NUMRESMAX
C---- -----
C---- jury decision -----
C---- -----
INTEGER NUMNETMAX,NUMNETFSTMAX,NUMNETSNDMAX
* *
C---- -----
C---- data handling -----
C---- -----
REAL ABW
* *
LOGICAL LDSSP
C---- protein (read hssp)
INTEGER MAXALIGNS,MAXCORE
* *
* *
C---- =================================================================*
* *
C---- ----------------------------------------
PARAMETER (NUMINMAX= 850)
PARAMETER (NUMOUTMAX= 10)
PARAMETER (NUMHIDMAX= 60)
PARAMETER (NUMNEIGHMAX= 21)
PARAMETER (NBIOLOBJMAX= 21)
PARAMETER (NCODEUNTMAX= 63)
PARAMETER (NHISTOMAX= 50)
C---- -------------------------------
* *
C---- ------------------------------------
PARAMETER (NUNITS_LENGTH= 4)
PARAMETER (NUNITS_DISTCAPS= 4)
C---- ------------------------------------
* *
C---- ---------------------------------------
PARAMETER (NUMPROTMAX= 2)
PARAMETER (NUMRESMAX= 3000)
C PARAMETER (NUMRESMAX= 5000)
C PARAMETER (NUMRESMAX= 10000)
C---- ---------------------------------------
* *
C---- ---------------------------------------
C for maxhom
C
PARAMETER (MAXALIGNS= 3000)
C PARAMETER (MAXALIGNS= 5000)
PARAMETER (MAXCORE= 500000)
C PARAMETER (MAXCORE= 800000)
C PARAMETER (MAXCORE= 1000000)
INTEGER NBLOCKSIZE
PARAMETER (NBLOCKSIZE= 70)
INTEGER MAXAA
PARAMETER (MAXAA= 20)
C---- ---------------------------------------
* *
C---- ---------------------------------------
PARAMETER (NUMNETMAX= 30)
PARAMETER (NUMNETFSTMAX= 15)
PARAMETER (NUMNETSNDMAX= 15)
C---- ---------------------------------------
* *
C---- ---------------------------------------
PARAMETER (ABW= 0.00001)
C---- ---------------------------------------
* *
* *
C---- ---------------------------------------
PARAMETER (LDSSP=.FALSE.)
C---- ---------------------------------------
* *
* *
C---- =================================================================*
************************************************************************
* * *
**** * ***VARIABLES*** * ***
* ********* *
* * *
* *
************************************************************************
C--------------------------------------------------
C---- shared numbers -----
C--------------------------------------------------
C---- -----
C---- environment (path asf) -----
C---- -----
CHARACTER*222 PATH_PARACOM,PATH_ARCH,PATH_WORK,PATH_PRED
INTEGER LENPATH_PARACOM
* *
* *
C---- -----
C---- hssp related variables -----
C---- -----
CHARACTER*222 FILE_HSSP,FILE_HSSP_NOCHAIN
CHARACTER*132 PROTNAME(1:NUMPROTMAX)
* *
CHARACTER*1 RESNAME(1:NUMRESMAX),
+ RESSECSTR(1:NUMRESMAX),CONVSECSTR(1:NUMRESMAX),
+ AACODE(1:NBIOLOBJMAX),SSCODE(1:7),EXPCODE(1:10)
CHARACTER*24 AACODE24
CHARACTER*26 AACODE_LOWC
* *
INTEGER RESACC(1:NUMRESMAX),
+ RESVAR(1:NUMRESMAX),RESPROF(1:NUMRESMAX,1:NBIOLOBJMAX),
+ RESNDEL(1:NUMRESMAX),RESNINS(1:NUMRESMAX),
+ NUMNALIGN(1:NUMPROTMAX)
* *
REAL*4 RESCONSWEIGHT(1:NUMRESMAX)
* *
INTEGER POINTBEG(1:NUMPROTMAX),POINTEND(0:NUMPROTMAX),
+ NUMRES,AABIT(1:NBIOLOBJMAX,1:NCODEUNTMAX)
* *
LOGICAL LDSSPREAD
* *
COMMON /ENV1/PATH_PARACOM,PATH_ARCH,PATH_WORK,PATH_PRED
COMMON /ENV2/LENPATH_PARACOM
COMMON /DATAB1A/PROTNAME
COMMON /DATAB1B/FILE_HSSP,FILE_HSSP_NOCHAIN
COMMON /DATAB2/RESNAME,RESSECSTR,CONVSECSTR,AACODE,SSCODE,EXPCODE
COMMON /DATAB2b/AACODE24
COMMON /DATAB2c/AACODE_LOWC
COMMON /DATAB3/RESACC,RESVAR,RESPROF,RESNDEL,RESNINS,NUMNALIGN,
+ POINTBEG,POINTEND,NUMRES,AABIT
COMMON /DATAB4/RESCONSWEIGHT
COMMON /DATAB5/LDSSPREAD
* *
* *
C---- -----
C---- Exposure related variables -----
C---- -----
INTEGER MAXEXP,T2,T3A,T3B
* *
REAL THREXP2ST(1:3),THREXP3ST(1:4),THREXP10ST(1:10)
* *
COMMON /EXP1/MAXEXP,T2,T3A,T3B
COMMON /EXP2/THREXP2ST,THREXP3ST,THREXP10ST
* *
C---- -----
C---- architecture -----
C---- -----
* *
INTEGER NUMIN,NUMHID,NUMOUT,NUMNEIGH,NBIOLOBJ,NCODEUNT,
+ NUMNETFST,NUMNETSND,NUMNETJURY,MAXVAR,
+ MAXACC,PROFACC,CASCACC,NSECEL
INTEGER TRANS2FROM1(1:NUMNETSNDMAX)
* *
COMMON /COMPARA1/NUMIN,NUMHID,NUMOUT,NUMNEIGH,NBIOLOBJ,NCODEUNT,
+ NUMNETFST,NUMNETSND,NUMNETJURY,MAXVAR,
+ MAXACC,PROFACC,CASCACC,NSECEL
COMMON /COMPARA2/TRANS2FROM1
* *
C--------------------------------------------------
C---- characters/modes being shared -----
C--------------------------------------------------
C---- -----
C---- different modes -----
C---- -----
* *
CHARACTER*132 MODEASSSTR(1:NUMNETSNDMAX),
+ MODEASSCAS(1:NUMNETFSTMAX),MODESECSTRON
* *
CHARACTER*222 FILEPRED,FILEOUTPUT,ACTFILE,
+ FILEARCHFST(1:NUMNETFSTMAX),FILEARCHSND(1:NUMNETSNDMAX),
+ FILE_ARCHLIST,FILE_RDB,FILE_WHATIF,
+ CHAR_ARG_READ(1:222)
* *
COMMON /COMPARA3/MODEASSSTR,MODEASSCAS,MODESECSTRON
COMMON /COMPARA4/FILEPRED,FILEOUTPUT,ACTFILE,
+ FILEARCHFST,FILEARCHSND,FILE_ARCHLIST,FILE_RDB,FILE_WHATIF,
+ CHAR_ARG_READ
C--------------------------------------------------
C---- previous parameters for particular job -----
C---- note: assigned by parset.f -----
C--------------------------------------------------
* *
C---- -----
C---- junctions, biases -----
C---- -----
* *
REAL JUNCTION1ST(1:(NUMINMAX+NUMOUTMAX),1:NUMHIDMAX)
REAL LOCFIELD1(1:NUMHIDMAX)
REAL JUNCTION2ND(1:(NUMHIDMAX+NUMOUTMAX),1:NUMOUTMAX)
REAL LOCFIELD2(1:NUMOUTMAX)
* *
COMMON /TRIGGER3/JUNCTION1ST,JUNCTION2ND
COMMON /TRIGGER4/LOCFIELD1,LOCFIELD2
* *
C---- -----
C---- in/out vectors -----
C---- -----
* *
REAL*4 INPUT(1:(NUMINMAX+NUMOUTMAX),1:NUMRESMAX)
REAL*4 OUTPUT(1:NUMOUTMAX,1:NUMRESMAX),
+ OUTFIL(1:NUMOUTMAX,1:NUMRESMAX),
+ OUTFST(1:NUMOUTMAX,1:NUMRESMAX,1:NUMNETFSTMAX),
+ OUTSND(1:NUMOUTMAX,1:NUMRESMAX,1:NUMNETSNDMAX)
REAL*4 OUTEXP(1:NUMRESMAX),DESEXP(1:NUMRESMAX),
+ OUTEXPFIL(1:NUMRESMAX)
INTEGER*4 OUTBIN(1:NUMOUTMAX,1:NUMRESMAX),
+ OUTBINPROB(1:NUMOUTMAX,1:NUMRESMAX)
* *
CHARACTER*1 OUTBINCHAR(1:NUMRESMAX),OUTBINCHARFIL(1:NUMRESMAX)
* *
* *
COMMON /EXTERN1/INPUT,OUTPUT,OUTFST,OUTSND,OUTEXP,DESEXP,
+ OUTFIL,OUTEXPFIL
COMMON /EXTERN2/OUTBIN,OUTBINPROB
COMMON /EXTERN3/OUTBINCHAR,OUTBINCHARFIL
* *
C---- -----
C---- reliability index -----
C---- -----
* *
INTEGER NUMRELIND(0:9)
INTEGER*2 RELIND(1:NUMRESMAX)
INTEGER*2 DSSPVEC_I2(1:NUMRESMAX),PREDVEC_I2(1:NUMRESMAX)
* *
COMMON /EXTERN4a/NUMRELIND
COMMON /EXTERN4b/RELIND,DSSPVEC_I2,PREDVEC_I2
* *
* *
C---- -----
C---- filtering stuff (exposure) -----
C---- -----
* *
REAL REDUCE_MINSIZE,REDUCE_STATE0,REDUCE_STATE1
LOGICAL LREDUCE_BURRIED
* *
COMMON /FILTER1/REDUCE_MINSIZE,REDUCE_STATE0,REDUCE_STATE1
COMMON /FILTER2/LREDUCE_BURRIED
* *
C---- -----
C---- run time variables -----
C---- -----
* *
CHARACTER*24 STARTDATE,ENDDATE,XDTE
CHARACTER*8 STARTTIME,ENDTIME
* *
REAL TIMEDIFF,TIMEARRAY,TIMESTART,TIMERUN,TIMEEND
* *
COMMON /CLOCK1/STARTDATE,ENDDATE,XDTE,STARTTIME,ENDTIME
COMMON /CLOCK2/TIMEARRAY,TIMEDIFF,TIMESTART,TIMERUN,TIMEEND
* *
* *
C---- -----
C---- pay-off numbers -----
C---- -----
* *
INTEGER MATNUM(1:(NUMOUTMAX+1),1:(NUMOUTMAX+1)),
+ MATLEN(1:(NUMOUTMAX+1),1:4),
+ MATLENDIS(1:NHISTOMAX,1:(2*NUMOUTMAX)),
+ NUMSEGOVERL(1:9,1:(NUMOUTMAX+1)),
+ COUNTSEGMAT(1:2,1:(NUMOUTMAX+1)),
+ EXP_NOINBIN(0:9,0:9),
+ EXP_NOIN2ST(1:3),EXP_NOIN3ST(1:4),EXP_NOIN10ST(1:11),
+ OBS_NOIN2ST(1:3),OBS_NOIN3ST(1:4),OBS_NOIN10ST(1:11)
* *
REAL Q3,SQ,CORR(1:NUMOUTMAX),INFO,INFO_INV,
+ RMATQOFDSSP(1:NUMOUTMAX,1:NUMOUTMAX),
+ RMATQOFPRED(1:NUMOUTMAX,1:NUMOUTMAX),
+ QLOV(1:2,1:(NUMOUTMAX+1)),
+ QSOV(1:2,1:(NUMOUTMAX+1)),QFOV(1:2,1:(NUMOUTMAX+1)),
+ EXP_CORR
* *
* *
CHARACTER*132 TITLE,VERSION_SEC,VERSION_EXP,VERSION_HTM
* *
COMMON /PAYOFF1/MATNUM,MATLEN,MATLENDIS,NUMSEGOVERL,COUNTSEGMAT,
+ EXP_NOINBIN,EXP_NOIN2ST,EXP_NOIN3ST,EXP_NOIN10ST,
+ OBS_NOIN2ST,OBS_NOIN3ST,OBS_NOIN10ST
COMMON /PAYOFF2/Q3,SQ,CORR,RMATQOFDSSP,RMATQOFPRED,INFO,INFO_INV,
+ QLOV,QSOV,QFOV,EXP_CORR
COMMON /PAYOFF3/TITLE,VERSION_SEC,VERSION_EXP,VERSION_HTM
* *
* *
C---- -----
C---- content, asf. -----
C---- -----
* *
REAL CONTPRED(1:NUMOUTMAX),CONTDSSP(1:NUMOUTMAX),CONTAA(1:24)
* *
COMMON /CONT/CONTPRED,CONTDSSP,CONTAA
* *
C---- -----
C---- communication -----
C---- -----
* *
CHARACTER*1 ACTRESIDUE
CHARACTER*15 CASEDISCR,CONTROLCHAR
CHARACTER*25 ACTREGION
* *
INTEGER ACTPOS,ACTSOLVADDBEG,ACTSOLVADDEND,
+ ACTSOLVADDEND2,CODEVECPROF(1:NBIOLOBJMAX),PROFMAX,
+ CODEVECINCASC(1:(NUMOUTMAX+1)),
+ CODECOMPOSITION(1:NBIOLOBJMAX),
+ ACTCOMPOSITION(1:NBIOLOBJMAX),
+ ACTCHI,ACTITER,ACTSTART,ACTNDEL,ACTNINS,ACTNALIGN,ACTACC
* *
INTEGER BEGUNITS_COMPOSITION,
+ BEGUNITS_LENGTH,BEGUNITS_DISTCAPS,
+ SPLIT_LENGTH(1:NUNITS_LENGTH),
+ SPLIT_DISTCAPS(1:(NUNITS_LENGTH+1))
* *
REAL CODEVECTOR(1:NCODEUNTMAX),PROFINTERV,CASCINTERV,
+ ACTCONSWEIGHT,ACTINTERVALL
* *
LOGICAL LOGI_COMPOSITION,LOGI_LENGTH,LOGI_DISTCAPS,
+ LOGI_CONS,LOGI_INDEL,LOGI_REALINPUT
* *
COMMON /CODE1A/ACTRESIDUE
COMMON /CODE1B/CASEDISCR,CONTROLCHAR
COMMON /CODE1C/ACTREGION
COMMON /CODE3/ACTPOS,ACTSOLVADDBEG,ACTSOLVADDEND,ACTSOLVADDEND2,
+ CODEVECPROF,PROFMAX,CODEVECINCASC,
+ CODECOMPOSITION,ACTCOMPOSITION,
+ ACTCHI,ACTITER,ACTSTART,ACTNDEL,ACTNINS,ACTNALIGN,ACTACC
COMMON /CODE4/CODEVECTOR,PROFINTERV,CASCINTERV,ACTCONSWEIGHT,
+ ACTINTERVALL
COMMON /CODE5/BEGUNITS_COMPOSITION,
+ BEGUNITS_LENGTH,BEGUNITS_DISTCAPS,
+ SPLIT_LENGTH,SPLIT_DISTCAPS
COMMON /CODE6/LOGI_COMPOSITION,LOGI_LENGTH,LOGI_DISTCAPS,
+ LOGI_CONS,LOGI_INDEL,LOGI_REALINPUT
* *
C---- -----
C---- controls -----
C---- -----
* *
LOGICAL LSERVER,LFILTER,LDEC,LOUTBINPROB,
+ LMACHINE_READABLE,LWHATIF,LRDB
* *
COMMON /CONTROL/LSERVER,LFILTER,LDEC,LOUTBINPROB,
+ LMACHINE_READABLE,LWHATIF,LRDB
* *
*----------------------------------------------------------------------*
* Parmaters and Common variables for PHD *
*----------------------------------------------------------------------*
|
