Hi, I am having some trouble to run the nonparametric bootstrap on my data. Could you help me? Below you find the error message.
rgufal@cln0:~/Documentos/ANDRE/AAF$ python2 BetaVersion/nonparametric_bootstrap.py -k 25 -t 4 -G 16 -d data --S1 100 --S2 20
SPECIES LIST:
Pangu
Pgaud
Pgram
Psp1H
Psp2H
Pstri
Pten1
Pten2
Purvi
Raber
Ralb1
Ralb2
Rbald
Rbar1
Rbar2
Rbert
Rbifl
Rbrac
Rbras
Rbro1
Rbro2
Rbro3
Rbuch
Rcali
Rcap1
Rcap2
Rceph
Rceps
Rchal
Rchap
Rchin
Rcili
Rcilo
Rcolo
Rcoma
Rcomp
Rcrin
Rcube
Rdebi
Rdecu
Rdist
Rdiva
Rdive
Relat
Relli
Remac
Rexal
Rexim
Rfasc
Rfern
Rfili
Rfusc
Rgale
Rglaz
Rglo1
Rglo2
Rglo3
Rgray
Rharp
Rharv
Rimer
Rinex
Rinte
Rknie
Rlati
Rlava
Rlept
Rmacr
Rmari
Rmarl
Rmega
Rmegp
Rmicp
Rmicr
Rmili
Rmixt
Rnite
Rnive
Rodor
Rpall
Rperp
Rplum
Rpoly
Rprui
Rpube
Rpunc
Rpusi
Rrace
Rradi
Rrari
Rreco
Rried
Rripa
Rrobu
Rrubr
Rschi
Rscir
Rsesl
Rsier
RspI1
Rsten
Rsulc
Rtene
Rtenu
Rtrac
Rvulc
Rwrig
1 out of 100 times of bootstrap over reads.
Thu Feb 2 00:16:27 2017
running batch 1/27
kmer_count -l 25 -n 1 -G 4 -o data/Pangu.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Pangu/Pangu.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Pgaud.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Pgaud/Pgaud.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Pgram.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Pgram/Pgram.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Psp1H.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Psp1H/Psp1H.fa'
Total: 236590 kmers
Total: 273945 kmers
Total: 405446 kmers
Total: 436814 kmers
kmer_count -l 25 -n 1 -G 4 -o data/Psp2H.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Psp2H/Psp2H.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Pstri.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Pstri/Pstri.fa'
Thu Feb 2 00:16:28 2017
running batch 2/27
kmer_count -l 25 -n 1 -G 4 -o data/Pten1.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Pten1/Pten1.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Pten2.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Pten2/Pten2.fa'
Total: 263520 kmers
Total: 281579 kmers
Total: 570942 kmers
Total: 617703 kmers
Thu Feb 2 00:16:30 2017
kmer_count -l 25 -n 1 -G 4 -o data/Purvi.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Purvi/Purvi.fa'
running batch 3/27
kmer_count -l 25 -n 1 -G 4 -o data/Raber.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Raber/Raber.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Ralb1.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Ralb1/Ralb1.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Ralb2.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Ralb2/Ralb2.fa'
Total: 578501 kmers
Total: 622151 kmers
Total: 897710 kmers
Total: 1129223 kmers
Thu Feb 2 00:16:32 2017
running batch 4/27
kmer_count -l 25 -n 1 -G 4 -o data/Rbald.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rbald/Rbald.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rbar1.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rbar1/Rbar1.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rbar2.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rbar2/Rbar2.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rbert.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rbert/Rbert.fa'
Total: 853690 kmers
Total: 903695 kmers
Total: 1105437 kmers
Total: 1112646 kmers
Thu Feb 2 00:16:36 2017
running batch 5/27
kmer_count -l 25 -n 1 -G 4 -o data/Rbifl.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rbifl/Rbifl.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rbrac.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rbrac/Rbrac.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rbras.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rbras/Rbras.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rbro1.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rbro1/Rbro1.fa'
Total: 1854 kmers
Total: 690664 kmers
Total: 944905 kmers
Total: 1091638 kmers
Thu Feb 2 00:16:38 2017
kmer_count -l 25 -n 1 -G 4 -o data/Rbro2.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rbro2/Rbro2.fa'
running batch 6/27
kmer_count -l 25 -n 1 -G 4 -o data/Rbro3.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rbro3/Rbro3.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rbuch.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rbuch/Rbuch.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rcali.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rcali/Rcali.fa'
Total: 900477 kmers
Total: 1131040 kmers
Total: 1277587 kmers
Total: 1299140 kmers
Thu Feb 2 00:16:41 2017
running batch 7/27
kmer_count -l 25 -n 1 -G 4 -o data/Rcap1.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rcap1/Rcap1.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rcap2.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rcap2/Rcap2.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rceph.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rceph/Rceph.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rceps.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rceps/Rceps.fa'
Total: 882956 kmers
Total: 1016400 kmers
Total: 1824643 kmers
Total: 1824965 kmers
kmer_count -l 25 -n 1 -G 4 -o data/Rchal.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rchal/Rchal.fa'
Thu Feb 2 00:16:46 2017
running batch 8/27
kmer_count -l 25 -n 1 -G 4 -o data/Rchap.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rchap/Rchap.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rchin.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rchin/Rchin.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rcili.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rcili/Rcili.fa'
Total: 518702 kmers
Total: 680853 kmers
Total: 853249 kmers
Total: 1020510 kmers
kmer_count -l 25 -n 1 -G 4 -o data/Rcilo.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rcilo/Rcilo.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rcolo.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rcolo/Rcolo.fa'
Thu Feb 2 00:16:48 2017
running batch 9/27
kmer_count -l 25 -n 1 -G 4 -o data/Rcoma.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rcoma/Rcoma.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rcomp.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rcomp/Rcomp.fa'
Total: 522384 kmers
Total: 791138 kmers
Total: 921074 kmers
Total: 1860267 kmers
kmer_count -l 25 -n 1 -G 4 -o data/Rcrin.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rcrin/Rcrin.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rcube.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rcube/Rcube.fa'
Thu Feb 2 00:16:52 2017
running batch 10/27
kmer_count -l 25 -n 1 -G 4 -o data/Rdebi.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rdebi/Rdebi.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rdecu.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rdecu/Rdecu.fa'
Total: 779288 kmers
Total: 1087005 kmers
Total: 1342066 kmers
Total: 1506813 kmers
Thu Feb 2 00:16:56 2017
running batch 11/27
kmer_count -l 25 -n 1 -G 4 -o data/Rdist.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rdist/Rdist.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rdiva.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rdiva/Rdiva.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rdive.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rdive/Rdive.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Relat.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Relat/Relat.fa'
Total: 18214 kmers
Total: 672527 kmers
Total: 956949 kmers
Total: 1399766 kmers
kmer_count -l 25 -n 1 -G 4 -o data/Relli.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Relli/Relli.fa'
Thu Feb 2 00:16:59 2017
running batch 12/27
kmer_count -l 25 -n 1 -G 4 -o data/Remac.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Remac/Remac.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rexal.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rexal/Rexal.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rexim.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rexim/Rexim.fa'
Total: 653168 kmers
Total: 583478 kmers
Total: 853401 kmers
Total: 964250 kmers
kmer_count -l 25 -n 1 -G 4 -o data/Rfasc.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rfasc/Rfasc.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rfern.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rfern/Rfern.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rfili.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rfili/Rfili.fa'
Thu Feb 2 00:17:01 2017
running batch 13/27
kmer_count -l 25 -n 1 -G 4 -o data/Rfusc.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rfusc/Rfusc.fa'
Total: 486312 kmers
Total: 645445 kmers
Total: 756005 kmers
Total: 946328 kmers
kmer_count -l 25 -n 1 -G 4 -o data/Rgale.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rgale/Rgale.fa'
Thu Feb 2 00:17:03 2017
running batch 14/27
kmer_count -l 25 -n 1 -G 4 -o data/Rglaz.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rglaz/Rglaz.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rglo1.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rglo1/Rglo1.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rglo2.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rglo2/Rglo2.fa'
Total: 340459 kmers
Total: 790820 kmers
Total: 843002 kmers
Total: 1631524 kmers
Thu Feb 2 00:17:07 2017
running batch 15/27
kmer_count -l 25 -n 1 -G 4 -o data/Rglo3.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rglo3/Rglo3.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rgray.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rgray/Rgray.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rharp.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rharp/Rharp.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rharv.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rharv/Rharv.fa'
Total: 715601 kmers
Total: 914590 kmers
Total: 1038797 kmers
Total: 1184725 kmers
kmer_count -l 25 -n 1 -G 4 -o data/Rimer.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rimer/Rimer.fa'
Thu Feb 2 00:17:10 2017
running batch 16/27
kmer_count -l 25 -n 1 -G 4 -o data/Rinex.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rinex/Rinex.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rinte.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rinte/Rinte.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rknie.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rknie/Rknie.fa'
Total: 702146 kmers
Total: 1030774 kmers
Total: 1347309 kmers
Total: 1341808 kmers
kmer_count -l 25 -n 1 -G 4 -o data/Rlati.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rlati/Rlati.fa'
Thu Feb 2 00:17:13 2017
running batch 17/27
kmer_count -l 25 -n 1 -G 4 -o data/Rlava.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rlava/Rlava.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rlept.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rlept/Rlept.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rmacr.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rmacr/Rmacr.fa'
Total: 525570 kmers
Total: 576172 kmers
Total: 1345604 kmers
Total: 1596797 kmers
Thu Feb 2 00:17:17 2017
kmer_count -l 25 -n 1 -G 4 -o data/Rmari.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rmari/Rmari.fa'
running batch 18/27
kmer_count -l 25 -n 1 -G 4 -o data/Rmarl.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rmarl/Rmarl.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rmega.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rmega/Rmega.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rmegp.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rmegp/Rmegp.fa'
Total: 646760 kmers
Total: 589472 kmers
Total: 905129 kmers
Total: 1478663 kmers
Thu Feb 2 00:17:20 2017
running batch 19/27
kmer_count -l 25 -n 1 -G 4 -o data/Rmicp.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rmicp/Rmicp.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rmicr.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rmicr/Rmicr.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rmili.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rmili/Rmili.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rmixt.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rmixt/Rmixt.fa'
Total: 369315 kmers
Total: 971278 kmers
Total: 1700172 kmers
Total: 1870676 kmers
Thu Feb 2 00:17:25 2017
running batch 20/27
kmer_count -l 25 -n 1 -G 4 -o data/Rnite.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rnite/Rnite.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rnive.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rnive/Rnive.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rodor.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rodor/Rodor.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rpall.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rpall/Rpall.fa'
Total: 712578 kmers
Total: 866813 kmers
Total: 903405 kmers
Total: 1044035 kmers
Thu Feb 2 00:17:27 2017
kmer_count -l 25 -n 1 -G 4 -o data/Rperp.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rperp/Rperp.fa'
running batch 21/27
kmer_count -l 25 -n 1 -G 4 -o data/Rplum.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rplum/Rplum.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rpoly.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rpoly/Rpoly.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rprui.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rprui/Rprui.fa'
Total: 8314 kmers
Total: 413046 kmers
Total: 1192931 kmers
Total: 1944980 kmers
Thu Feb 2 00:17:31 2017
running batch 22/27
kmer_count -l 25 -n 1 -G 4 -o data/Rpube.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rpube/Rpube.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rpunc.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rpunc/Rpunc.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rpusi.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rpusi/Rpusi.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rrace.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rrace/Rrace.fa'
Total: 1423 kmers
Total: 407698 kmers
Total: 643732 kmers
Total: 1482929 kmers
Thu Feb 2 00:17:34 2017
running batch 23/27
kmer_count -l 25 -n 1 -G 4 -o data/Rradi.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rradi/Rradi.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rrari.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rrari/Rrari.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rreco.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rreco/Rreco.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rried.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rried/Rried.fa'
Total: 47773 kmers
Total: 679416 kmers
Total: 769224 kmers
Total: 864651 kmers
Thu Feb 2 00:17:36 2017
running batch 24/27
kmer_count -l 25 -n 1 -G 4 -o data/Rripa.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rripa/Rripa.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rrobu.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rrobu/Rrobu.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rrubr.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rrubr/Rrubr.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rschi.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rschi/Rschi.fa'
Total: 19780 kmers
Total: 54908 kmers
Total: 824393 kmers
Total: 903644 kmers
Thu Feb 2 00:17:38 2017
running batch 25/27
kmer_count -l 25 -n 1 -G 4 -o data/Rscir.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rscir/Rscir.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rsesl.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rsesl/Rsesl.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rsier.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rsier/Rsier.fa'
kmer_count -l 25 -n 1 -G 4 -o data/RspI1.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/RspI1/RspI1.fa'
Total: 696521 kmers
Total: 697564 kmers
Total: 862815 kmers
Total: 812405 kmers
Thu Feb 2 00:17:41 2017
kmer_count -l 25 -n 1 -G 4 -o data/Rsten.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rsten/Rsten.fa'
running batch 26/27
kmer_count -l 25 -n 1 -G 4 -o data/Rsulc.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rsulc/Rsulc.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rtene.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rtene/Rtene.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rtenu.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rtenu/Rtenu.fa'
Total: 163323 kmers
Total: 238938 kmers
Total: 1473427 kmers
Total: 1624038 kmers
kmer_count -l 25 -n 1 -G 4 -o data/Rtrac.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rtrac/Rtrac.fa'
kmer_count -l 25 -n 1 -G 4 -o data/Rvulc.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rvulc/Rvulc.fa'
Thu Feb 2 00:17:44 2017
running last batch
kmer_count -l 25 -n 1 -G 4 -o data/Rwrig.pkdat.gz -i '/home/rgufal/Documentos/ANDRE/AAF/boot_Folder/Rwrig/Rwrig.fa'
Total: 19111 kmers
Total: 39221 kmers
Total: 1132628 kmers
Thu Feb 2 00:17:47 2017
kmer_merge -k s -c -d '0' -a 'O,M,F' 'data/Pangu.pkdat.gz' 'data/Pgaud.pkdat.gz' 'data/Pgram.pkdat.gz' 'data/Psp1H.pkdat.gz' 'data/Psp2H.pkdat.gz' 'data/Pstri.pkdat.gz' 'data/Pten1.pkdat.gz' 'data/Pten2.pkdat.gz' 'data/Purvi.pkdat.gz' 'data/Raber.pkdat.gz' 'data/Ralb1.pkdat.gz' 'data/Ralb2.pkdat.gz' 'data/Rbald.pkdat.gz' 'data/Rbar1.pkdat.gz' 'data/Rbar2.pkdat.gz' 'data/Rbert.pkdat.gz' 'data/Rbifl.pkdat.gz' 'data/Rbrac.pkdat.gz' 'data/Rbras.pkdat.gz' 'data/Rbro1.pkdat.gz' 'data/Rbro2.pkdat.gz' 'data/Rbro3.pkdat.gz' 'data/Rbuch.pkdat.gz' 'data/Rcali.pkdat.gz' 'data/Rcap1.pkdat.gz' 'data/Rcap2.pkdat.gz' 'data/Rceph.pkdat.gz' 'data/Rceps.pkdat.gz' 'data/Rchal.pkdat.gz' 'data/Rchap.pkdat.gz' 'data/Rchin.pkdat.gz' 'data/Rcili.pkdat.gz' 'data/Rcilo.pkdat.gz' 'data/Rcolo.pkdat.gz' 'data/Rcoma.pkdat.gz' 'data/Rcomp.pkdat.gz' 'data/Rcrin.pkdat.gz' 'data/Rcube.pkdat.gz' 'data/Rdebi.pkdat.gz' 'data/Rdecu.pkdat.gz' 'data/Rdist.pkdat.gz' 'data/Rdiva.pkdat.gz' 'data/Rdive.pkdat.gz' 'data/Relat.pkdat.gz' 'data/Relli.pkdat.gz' 'data/Remac.pkdat.gz' 'data/Rexal.pkdat.gz' 'data/Rexim.pkdat.gz' 'data/Rfasc.pkdat.gz' 'data/Rfern.pkdat.gz' 'data/Rfili.pkdat.gz' 'data/Rfusc.pkdat.gz' 'data/Rgale.pkdat.gz' 'data/Rglaz.pkdat.gz' 'data/Rglo1.pkdat.gz' 'data/Rglo2.pkdat.gz' 'data/Rglo3.pkdat.gz' 'data/Rgray.pkdat.gz' 'data/Rharp.pkdat.gz' 'data/Rharv.pkdat.gz' 'data/Rimer.pkdat.gz' 'data/Rinex.pkdat.gz' 'data/Rinte.pkdat.gz' 'data/Rknie.pkdat.gz' 'data/Rlati.pkdat.gz' 'data/Rlava.pkdat.gz' 'data/Rlept.pkdat.gz' 'data/Rmacr.pkdat.gz' 'data/Rmari.pkdat.gz' 'data/Rmarl.pkdat.gz' 'data/Rmega.pkdat.gz' 'data/Rmegp.pkdat.gz' 'data/Rmicp.pkdat.gz' 'data/Rmicr.pkdat.gz' 'data/Rmili.pkdat.gz' 'data/Rmixt.pkdat.gz' 'data/Rnite.pkdat.gz' 'data/Rnive.pkdat.gz' 'data/Rodor.pkdat.gz' 'data/Rpall.pkdat.gz' 'data/Rperp.pkdat.gz' 'data/Rplum.pkdat.gz' 'data/Rpoly.pkdat.gz' 'data/Rprui.pkdat.gz' 'data/Rpube.pkdat.gz' 'data/Rpunc.pkdat.gz' 'data/Rpusi.pkdat.gz' 'data/Rrace.pkdat.gz' 'data/Rradi.pkdat.gz' 'data/Rrari.pkdat.gz' 'data/Rreco.pkdat.gz' 'data/Rried.pkdat.gz' 'data/Rripa.pkdat.gz' 'data/Rrobu.pkdat.gz' 'data/Rrubr.pkdat.gz' 'data/Rschi.pkdat.gz' 'data/Rscir.pkdat.gz' 'data/Rsesl.pkdat.gz' 'data/Rsier.pkdat.gz' 'data/RspI1.pkdat.gz' 'data/Rsten.pkdat.gz' 'data/Rsulc.pkdat.gz' 'data/Rtene.pkdat.gz' 'data/Rtenu.pkdat.gz' 'data/Rtrac.pkdat.gz' 'data/Rvulc.pkdat.gz' 'data/Rwrig.pkdat.gz' | cut -f 2,4,6,8,10,12,14,16,18,20,22,24,26,28,30,32,34,36,38,40,42,44,46,48,50,52,54,56,58,60,62,64,66,68,70,72,74,76,78,80,82,84,86,88,90,92,94,96,98,100,102,104,106,108,110,112,114,116,118,120,122,124,126,128,130,132,134,136,138,140,142,144,146,148,150,152,154,156,158,160,162,164,166,168,170,172,174,176,178,180,182,184,186,188,190,192,194,196,198,200,202,204,206,208,210,212,214 | gzip > data/phylokmer.dat.gz
Thu Feb 2 00:25:49 2017
Thu Feb 2 00:25:49 2017 start calulation distances
.
Traceback (most recent call last):
File "BetaVersion/nonparametric_bootstrap.py", line 376, in
aaf_distance(outFile,nThreads,memory,samples,options.kLen)
File "BetaVersion/nonparametric_bootstrap.py", line 92, in aaf_distance
total,shared = job.get()
File "/usr/lib/python2.7/multiprocessing/pool.py", line 567, in get
raise self._value
IOError: bad message length
Thanks,
André