Job ID = 2008223 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 6,938,716 reads read : 13,877,432 reads written : 13,877,432 rm: cannot remove ‘[DSE]RR*’: No such file or directory fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:23:43 6938716 reads; of these: 6938716 (100.00%) were paired; of these: 307585 (4.43%) aligned concordantly 0 times 6094362 (87.83%) aligned concordantly exactly 1 time 536769 (7.74%) aligned concordantly >1 times ---- 307585 pairs aligned concordantly 0 times; of these: 138039 (44.88%) aligned discordantly 1 time ---- 169546 pairs aligned 0 times concordantly or discordantly; of these: 339092 mates make up the pairs; of these: 242961 (71.65%) aligned 0 times 67422 (19.88%) aligned exactly 1 time 28709 (8.47%) aligned >1 times 98.25% overall alignment rate Time searching: 00:23:43 Overall time: 00:23:43 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 8 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 1124930 / 6749800 = 0.1667 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Fri, 05 Jul 2019 18:36:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Fri, 05 Jul 2019 18:36:00: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:36:00: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:36:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Fri, 05 Jul 2019 18:36:00: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:36:00: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:36:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Fri, 05 Jul 2019 18:36:04: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:36:04: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:36:16: 1000000 INFO @ Fri, 05 Jul 2019 18:36:16: 1000000 INFO @ Fri, 05 Jul 2019 18:36:24: 1000000 INFO @ Fri, 05 Jul 2019 18:36:30: 2000000 INFO @ Fri, 05 Jul 2019 18:36:33: 2000000 INFO @ Fri, 05 Jul 2019 18:36:44: 3000000 INFO @ Fri, 05 Jul 2019 18:36:46: 2000000 INFO @ Fri, 05 Jul 2019 18:36:49: 3000000 INFO @ Fri, 05 Jul 2019 18:36:55: 4000000 INFO @ Fri, 05 Jul 2019 18:37:00: 3000000 INFO @ Fri, 05 Jul 2019 18:37:01: 4000000 INFO @ Fri, 05 Jul 2019 18:37:05: 5000000 INFO @ Fri, 05 Jul 2019 18:37:17: 5000000 INFO @ Fri, 05 Jul 2019 18:37:17: 4000000 INFO @ Fri, 05 Jul 2019 18:37:21: 6000000 INFO @ Fri, 05 Jul 2019 18:37:27: 6000000 INFO @ Fri, 05 Jul 2019 18:37:28: 5000000 INFO @ Fri, 05 Jul 2019 18:37:31: 7000000 INFO @ Fri, 05 Jul 2019 18:37:38: 7000000 INFO @ Fri, 05 Jul 2019 18:37:41: 6000000 INFO @ Fri, 05 Jul 2019 18:37:42: 8000000 INFO @ Fri, 05 Jul 2019 18:37:50: 8000000 INFO @ Fri, 05 Jul 2019 18:37:54: 9000000 INFO @ Fri, 05 Jul 2019 18:37:56: 7000000 INFO @ Fri, 05 Jul 2019 18:38:00: 9000000 INFO @ Fri, 05 Jul 2019 18:38:03: 10000000 INFO @ Fri, 05 Jul 2019 18:38:09: 8000000 INFO @ Fri, 05 Jul 2019 18:38:11: 10000000 INFO @ Fri, 05 Jul 2019 18:38:13: 11000000 INFO @ Fri, 05 Jul 2019 18:38:18: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:38:18: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:38:18: #1 total tags in treatment: 5512751 INFO @ Fri, 05 Jul 2019 18:38:18: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:38:18: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 18:38:18: #1 tags after filtering in treatment: 3223579 INFO @ Fri, 05 Jul 2019 18:38:18: #1 Redundant rate of treatment: 0.42 INFO @ Fri, 05 Jul 2019 18:38:18: #1 finished! INFO @ Fri, 05 Jul 2019 18:38:18: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:38:18: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:38:18: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:38:18: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Fri, 05 Jul 2019 18:38:18: Process for pairing-model is terminated! BedGraph に変換しました。 BigWig に変換中... cut: /home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:38:24: 9000000 INFO @ Fri, 05 Jul 2019 18:38:24: 11000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 18:38:37: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:38:37: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:38:37: #1 total tags in treatment: 5512751 INFO @ Fri, 05 Jul 2019 18:38:37: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:38:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 18:38:37: #1 tags after filtering in treatment: 3223579 INFO @ Fri, 05 Jul 2019 18:38:37: #1 Redundant rate of treatment: 0.42 INFO @ Fri, 05 Jul 2019 18:38:37: #1 finished! INFO @ Fri, 05 Jul 2019 18:38:37: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:38:37: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:38:37: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:38:37: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Fri, 05 Jul 2019 18:38:37: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:38:45: 10000000 cut: /home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:39:03: 11000000 INFO @ Fri, 05 Jul 2019 18:39:09: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:39:09: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:39:09: #1 total tags in treatment: 5512751 INFO @ Fri, 05 Jul 2019 18:39:09: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:39:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 05 Jul 2019 18:39:09: #1 tags after filtering in treatment: 3223579 INFO @ Fri, 05 Jul 2019 18:39:09: #1 Redundant rate of treatment: 0.42 INFO @ Fri, 05 Jul 2019 18:39:09: #1 finished! INFO @ Fri, 05 Jul 2019 18:39:09: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:39:09: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:39:09: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:39:09: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Fri, 05 Jul 2019 18:39:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585749/ERX585749.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling