Hi,
I have recently installed iTasser on my Ubuntu 64bit PC. I attempted to run iTasser using a basic set-up. Things seemt o be working, although the programme hangs and spits out numerous error messages. I can not find the pair99.f file that seems to start the errors (is it deleted along that way?), so can not figure out how to fix this. '-light' option should have stopped the calculation after 5 hours, but it's still going after 50!
Fortran runtime error: End of file
Illegal division by zero...
Exception in thread "main" java.io.FileNotFoundException
Any ideas?
thanks,
Ant
$/home/ant/Programs/iTasser/I-TASSER2.1/I-TASSERmod/runI-TASSER.pl -libdir /home/ant/Programs/iTasser/I-TASSER2.1 -seqname A0N0N3 -datadir /home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3 -usrname ant -nmodel 3 -light -java_home /usr/
Your setting is:
-libdir =/home/ant/Programs/iTasser/I-TASSER2.1
-seqname =A0N0N3
-datadir =/home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3
-usrname =ant
-runstyle =serial
-idcut =1
-ntemp =20
-nmodel =3
1. make seq.txt and rmsinp
2.1 run Psi-blast
2.3 run solve
2.4 run pairmod
2.4.1 removing homology templates based on and 1
2.4.2 running pair ................
PGFIO-F-217/list-directed read/unit=31/attempt to read past end of file.
File name = /home/ant/Programs/iTasser/I-TASSER2.1/MTX/1a4zA.mtx formatted, sequential access record = 1
In source file pair99.f, at line number 170
/bin/cp: cannot stat ‘pair.3’: No such file or directory
/bin/cp: cannot stat ‘pair.1’: No such file or directory
3.1 do threading
start serial threading PPA
/tmp/ant/ITA0N0N3
/home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3/PPA_A0N0N3
read start: end of file
apparent state: unit 20 named /home/ant/Programs/iTasser/I-TASSER2.1/MTX/1a4zA.mtx
last format: list io
lately reading sequential formatted external IO
Illegal division by zero at /home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3/PPA_A0N0N3 line 353.
hostname: cheminfo
starting time: Fri Jul 19 21:46:07 IST 2013
pwd: /tmp/ant/ITA0N0N3
running zalign .....
start serial threading dPPA
/tmp/ant/ITA0N0N3
/home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3/dPPA_A0N0N3
At line 388 of file ppa1.f
Fortran runtime error: End of file
Illegal division by zero at /home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3/dPPA_A0N0N3 line 355.
hostname: cheminfo
starting time: Fri Jul 19 21:46:28 IST 2013
pwd: /tmp/ant/ITA0N0N3
running zalign .....
start serial threading dPPA2
/tmp/ant/ITA0N0N3
/home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3/dPPA2_A0N0N3
At line 388 of file ppa1.f
Fortran runtime error: End of file
Illegal division by zero at /home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3/dPPA2_A0N0N3 line 354.
hostname: cheminfo
starting time: Fri Jul 19 21:46:52 IST 2013
pwd: /tmp/ant/ITA0N0N3
running zalign .....
start serial threading sPPA
/tmp/ant/ITA0N0N3
/home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3/sPPA_A0N0N3
At line 398 of file zal3.f
Fortran runtime error: End of file
Illegal division by zero at /home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3/sPPA_A0N0N3 line 351.
hostname: cheminfo
starting time: Fri Jul 19 21:47:16 IST 2013
pwd: /tmp/ant/ITA0N0N3
running zalign .....
start serial threading MUSTER
/tmp/ant/ITA0N0N3
/home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3/MUSTER_A0N0N3
At line 596 of file zal33.f
Fortran runtime error: End of file
Illegal division by zero at /home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3/MUSTER_A0N0N3 line 585.
hostname: cheminfo
starting time: Fri Jul 19 21:47:41 IST 2013
pwd: /tmp/ant/ITA0N0N3
running Psi-blast .....
running zalign .....
./zalign 7.01 0.55 0.66 1.6 -0.99 0.31 0.19 0 1.0 0.39 0.19
start serial threading wPPA
/tmp/ant/ITA0N0N3
/home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3/wPPA_A0N0N3
Exception in thread "main" java.io.FileNotFoundException: /home/ant/Programs/iTasser/I-TASSER2.1/MTX/1a4zA1.mtx (No such file or directory)
at java.io.FileInputStream.open(Native Method)
at java.io.FileInputStream.(FileInputStream.java:138)
at java.io.FileInputStream.(FileInputStream.java:97)
at java.io.FileReader.(FileReader.java:58)
at d.a(d.java)
at d.main(d.java)
Illegal division by zero at /home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3/wPPA_A0N0N3 line 342.
hostname: cheminfo
starting time: Fri Jul 19 22:18:58 IST 2013
pwd: /tmp/ant/ITA0N0N3
running Psi-blast .....
start serial threading wdPPA
/tmp/ant/ITA0N0N3
/home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3/wdPPA_A0N0N3
Exception in thread "main" java.io.FileNotFoundException: /home/ant/Programs/iTasser/I-TASSER2.1/DEP/1a4zA.dep (No such file or directory)
at java.io.FileInputStream.open(Native Method)
at java.io.FileInputStream.(FileInputStream.java:138)
at java.io.FileInputStream.(FileInputStream.java:97)
at java.io.FileReader.(FileReader.java:58)
at c.a(c.java)
at c.main(c.java)
Illegal division by zero at /home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3/wdPPA_A0N0N3 line 347.
hostname: cheminfo
starting time: Fri Jul 19 22:33:23 IST 2013
pwd: /tmp/ant/ITA0N0N3
running Psi-blast .....
start serial threading wMUSTER
/tmp/ant/ITA0N0N3
/home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3/wMUSTER_A0N0N3
Exception in thread "main" java.io.FileNotFoundException: /home/ant/Programs/iTasser/I-TASSER2.1/DEP/1a4zA.dep (No such file or directory)
at java.io.FileInputStream.open(Native Method)
at java.io.FileInputStream.(FileInputStream.java:138)
at java.io.FileInputStream.(FileInputStream.java:97)
at java.io.FileReader.(FileReader.java:58)
at e.a(e.java)
at e.main(e.java)
Illegal division by zero at /home/ant/Documents/UCD_CASL_Shields/Ants_Projects_2010/Darran_OConnor_CART_GPCR/FASTA/A0N0N3/wMUSTER_A0N0N3 line 559.
hostname: cheminfo
starting time: Fri Jul 19 22:47:59 IST 2013
pwd: /tmp/ant/ITA0N0N3
running Psi-blast .....
running Psi-blast .....