We're seeing this error (running I-TASSER 5.1) on running a sequence with 165 residues. I've just substituted the user path with /userdir for the purposes of posting here. What could be causing the problems with the psitmp files?
2.1 run Psi-blast
Running Psi-Blast with 8 threads
2.2 Predict secondary structure with PSSpred...
2.3 Predict solvent accessibility...
2.4 run pairmod
2.4.1 Use all templates
submit threading jobs first and run pair during threading
3.1 do threading
start gnuparallel threading PPAS
start gnuparallel threading dPPAS
start gnuparallel threading dPPAS2
start gnuparallel threading Env-PPAS
start gnuparallel threading MUSTER
start gnuparallel threading wPPAS
start gnuparallel threading wdPPAS
start gnuparallel threading wMUSTER
[makemat] FATAL ERROR: Unable to recover checkpoint from psitmp.chk
mv: cannot stat `psitmp.mtx': No such file or directory
[makemat] FATAL ERROR: Unable to recover checkpoint from psitmp.chk
mv: cannot stat `psitmp.mtx': No such file or directory
At line 386 of file ppa1.f
Fortran runtime error: No such file or directory
Illegal division by zero at /userdir/dPPAS_seq.fasta line 361.
[makemat] FATAL ERROR: Unable to recover checkpoint from psitmp.chk
mv: cannot stat `psitmp.mtx': No such file or directory
At line 386 of file ppa1.f
Fortran runtime error: No such file or directory
Illegal division by zero at /userdir/dPPAS2_seq.fasta line 360.
[makemat] FATAL ERROR: Unable to recover checkpoint from psitmp.chk
mv: cannot stat `psitmp.mtx': No such file or directory
Illegal division by zero at /userdir/MUSTER_seq.fasta line 609.
[makemat] FATAL ERROR: Unable to recover checkpoint from psitmp.chk
mv: cannot stat `psitmp.mtx': No such file or directory
java.io.FileNotFoundException: /lscratch/53717405/ITLIB.FZpI/I-TASSER/dotProfiles/5h1nA.dotProfile (No such file or directory)
at java.io.FileInputStream.open(Native Method)
at java.io.FileInputStream.(FileInputStream.java:146)
at java.io.FileInputStream.(FileInputStream.java:101)
at java.io.FileReader.(FileReader.java:58)
at d.a(d.java)
at d.main(d.java)
Exception in thread "main" java.lang.NullPointerException
at d.a(d.java)
at d.main(d.java)
Illegal division by zero at /userdir/wPPAS_seq.fasta line 345.
[makemat] FATAL ERROR: Unable to recover checkpoint from psitmp.chk
mv: cannot stat `psitmp.mtx': No such file or directory
java.io.FileNotFoundException: /lscratch/53717405/ITLIB.FZpI/I-TASSER/dotProfiles/5h1nA.dotProfile (No such file or directory)
at java.io.FileInputStream.open(Native Method)
at java.io.FileInputStream.(FileInputStream.java:146)
at java.io.FileInputStream.(FileInputStream.java:101)
at java.io.FileReader.(FileReader.java:58)
at c.b(c.java)
at c.main(c.java)
Exception in thread "main" java.lang.NullPointerException
at c.b(c.java)
at c.main(c.java)
Illegal division by zero at /userdir/wdPPAS_seq.fasta line 353.
Exception in thread "main" java.io.FileNotFoundException: /lscratch/53717405/ITLIB.FZpI/I-TASSER/stride/5h1nA.stride.7state (No such file or directory)
at java.io.FileInputStream.open(Native Method)
at java.io.FileInputStream.(FileInputStream.java:146)
at java.io.FileInputStream.(FileInputStream.java:101)
at java.io.FileReader.(FileReader.java:58)
at e.main(e.java)
Illegal division by zero at /userdir/wMUSTER_seq.fasta line 584.
FORTRAN STOP
only 2 threading programs have output, please check threading programs