Dear All,<br><br>I am running Maker and get "Segmentation fault (core dumped)."  Below description is command line and setting.<br>Does anyone have same problem or any suggestions? <br><br>Best,<br><br>-------command and error message-------------------------------------<br>
 [alang@bioinfoX temporary]$ maker -CTL<br>modify maker_opts.ctl<br>...........<br>[alang@bioinfoX temporary]$ maker <br>STATUS: Parsing control files...<br>STATUS: Processing and indexing input FASTA files...<br>Segmentation fault (core dumped)<br>
===========================================<br clear="all"><br>------- maker_opts.ctl -------------------------------------<br>#-----Genome<br>genome=/home/alang/tools/maker/maker/temporary/dpp_contig.fasta<br>#-----EST Evidence<br>
est=/home/alang/tools/maker/maker/temporary/dpp_est.fasta<br>#altest=/fastas/alt_est.fasta<br><br>#-----Protein Homology Evidence<br>#protein=protein.fasta<br><br>#-----MAKER Specific Options<br>evaluate=0<br>max_dna_len=100000<br>
min_contig=1<br>min_protein=0<br>split_hit=10000<br>pred_flank=200<br>single_exon=0<br>single_length=250<br>keep_preds=0<br>map_forward=0<br>retry=1<br>clean_try=0<br>clean_up=0<br>============================================<br>
<br>----------maker_exe.ctl---------------------------------------------<br>#-----Location of Executables Used by MAKER/EVALUATOR<br>makeblastdb=/home/alang/tools/maker/maker/bin/../exe/blast/bin/makeblastdb #location of NCBI+ makeblastdb executable<br>
blastn=/home/alang/tools/maker/maker/bin/../exe/blast/bin/blastn #location of NCBI+ blastn executable<br>blastx=/home/alang/tools/maker/maker/bin/../exe/blast/bin/blastx #location of NCBI+ blastx executable<br>tblastx=/home/alang/tools/maker/maker/bin/../exe/blast/bin/tblastx #location of NCBI+ tblastx executable<br>
formatdb= #location of NCBI formatdb executable<br>blastall= #location of NCBI blastall executable<br>xdformat= #location of WUBLAST xdformat executable<br>blasta= #location of WUBLAST blasta executable<br>RepeatMasker=/home/alang/tools/maker/maker/bin/../exe/RepeatMasker/RepeatMasker #location of RepeatMasker executable<br>
exonerate=/home/alang/tools/maker/maker/bin/../exe/exonerate/bin/exonerate #location of exonerate executable<br><br>#-----Ab-initio Gene Prediction Algorithms<br>snap=/home/alang/tools/maker/maker/bin/../exe/snap/snap #location of snap executable<br>
gmhmme3=/home/alang/software/gm_es_bp_linux64_v2.3e/gmes/gmhmme3 #location of eukaryotic genemark executable<br>gmhmmp= #location of prokaryotic genemark executable<br>augustus=/home/alang/tools/maker/maker/bin/../exe/augustus/bin/augustus #location of augustus executable<br>
fgenesh= #location of fgenesh executable<br><br>#-----Other Algorithms<br>probuild=/home/alang/software/gm_es_bp_linux64_v2.3e/gmes/probuild #location of probuild executable (required for genemark)<br><br>============================================<br>
<br>-- <br>      <span style="color:rgb(102,102,102)">Alang</span><br><br>