Hello
I am able to start the run of I-Tasser program correctly however, I ran into error at Psi-Blast, with error being blastpgp is not working properly. Thus, I download blast 2.2.26 from ftp.ncbi.nlm.nih.gov Extracted file, substituted those files but still the error exist. I am not sure as to what to do. Please help. Here is my code thus far.
osl10.njit.edu-44 I-TASSERmod>: ./runI-TASSER.pl -pkgdir /afs/cad.njit.edu/u/m/a/ma524/s14.bnfo.602.102/nikeeta/I-TASSER3.0 -libdir /afs/cad.njit.edu/u/m/a/ma524/s14.bnfo.602.102/nikeeta/I-TASSER3.0/I-TASSERmod -seqname seq.fasta -datadir /afs/cad.njit.edu/u/m/a/ma524/s14.bnfo.602.102/nikeeta/I-TASSER3.0/I-TASSERmod -usrname ma524 -java_home /usr/lib/jvm/jre-1.6.0-openjdk.x86_64/
Your setting for I-TASSER is:
-pkgdir =/afs/cad.njit.edu/u/m/a/ma524/s14.bnfo.602.102/nikeeta/I-TASSER3.0
-libdir =/afs/cad.njit.edu/u/m/a/ma524/s14.bnfo.602.102/nikeeta/I-TASSER3.0/I-TASSERmod
-java_home =/usr/lib/jvm/jre-1.6.0-openjdk.x86_64/
-seqname =seq.fasta
-datadir =/afs/cad.njit.edu/u/m/a/ma524/s14.bnfo.602.102/nikeeta/I-TASSER3.0/I-TASSERmod
-usrname =ma524
-runstyle =serial
-homoflag =real
-idcut =1
-ntemp =20
-nmodel =5
-light =false
-LBS =false
-EC =false
-GO =false
1. make seq.txt and rmsinp
Your protein contains 542 residues:
> seq.fasta
QSGLQDGPEPSIHTQQAYAPEDDFTAKWTRADARQLQRMSDPTAPSRENSMPASVTMPTV
PQDFPDMSNEQVWVWDTWPLTDEDANQYSVNGWEIIFSLVADRNLGFDDRHVFAKIGYFY
RPAGVPAAERPENGGWTYGGLVFKEGVTGQIFEDQSFSHQTQWSGSARVSKNGEIKLFFT
DVAFYRNSDGTNIKPYDPRIALSVGKVKANKKGVTLTGFNKVTDLLQADGTYYQTGAQNE
FFNFRDPFTFEDPAHPGETFMVFEGNSAMQRETATCNEADLGYRQGDPYAETVDDVNASG
ATYQIGNVGLAKAKNKQLTEWEFLPPILSANCVTDQTERPQIYFKDGKSYLFTISHRGTF
AAGLDGPEGVYGFVGDGIRSDYQPLNGGSGLALGNPTNLNFLGGQPFAPDVNQHPGHFQA
YSHYVMPGGLVQSYIDTIGTHDDFVRGGTLAPTVKMDIGVGGDSTKTAVDYSYGSEGLGG
WADIPANKHLFTNGKFGVAVSDEAAQKIRKILGSKFDDYLDGKPVSATVRALIEKLLAQY
GG
2.1 run Psi-blast
/afs/cad.njit.edu/u/m/a/ma524/s14.bnfo.602.102/nikeeta/I-TASSER3.0/blast/bin/blastpgp is not working properly, please check
osl10.njit.edu-45 I-TASSERmod>: