Job ID = 2008160 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 9,906,775 reads read : 19,813,550 reads written : 19,813,550 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR628999.sra.cache’: 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: 00:11:21 9906775 reads; of these: 9906775 (100.00%) were paired; of these: 553799 (5.59%) aligned concordantly 0 times 8778090 (88.61%) aligned concordantly exactly 1 time 574886 (5.80%) aligned concordantly >1 times ---- 553799 pairs aligned concordantly 0 times; of these: 153841 (27.78%) aligned discordantly 1 time ---- 399958 pairs aligned 0 times concordantly or discordantly; of these: 799916 mates make up the pairs; of these: 746769 (93.36%) aligned 0 times 32537 (4.07%) aligned exactly 1 time 20610 (2.58%) aligned >1 times 96.23% overall alignment rate Time searching: 00:11:21 Overall time: 00:11:21 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] 2072103 / 9483087 = 0.2185 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 18:01:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.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 18:01:13: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:01:13: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:01:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.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 18:01:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.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 18:01:14: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:01:14: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:01:14: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:01:14: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:01:26: 1000000 INFO @ Fri, 05 Jul 2019 18:01:28: 1000000 INFO @ Fri, 05 Jul 2019 18:01:29: 1000000 INFO @ Fri, 05 Jul 2019 18:01:39: 2000000 INFO @ Fri, 05 Jul 2019 18:01:42: 2000000 INFO @ Fri, 05 Jul 2019 18:01:43: 2000000 INFO @ Fri, 05 Jul 2019 18:01:52: 3000000 INFO @ Fri, 05 Jul 2019 18:01:56: 3000000 INFO @ Fri, 05 Jul 2019 18:01:57: 3000000 INFO @ Fri, 05 Jul 2019 18:02:06: 4000000 INFO @ Fri, 05 Jul 2019 18:02:09: 4000000 INFO @ Fri, 05 Jul 2019 18:02:10: 4000000 INFO @ Fri, 05 Jul 2019 18:02:18: 5000000 INFO @ Fri, 05 Jul 2019 18:02:21: 5000000 INFO @ Fri, 05 Jul 2019 18:02:23: 5000000 INFO @ Fri, 05 Jul 2019 18:02:31: 6000000 INFO @ Fri, 05 Jul 2019 18:02:34: 6000000 INFO @ Fri, 05 Jul 2019 18:02:37: 6000000 INFO @ Fri, 05 Jul 2019 18:02:44: 7000000 INFO @ Fri, 05 Jul 2019 18:02:48: 7000000 INFO @ Fri, 05 Jul 2019 18:02:51: 7000000 INFO @ Fri, 05 Jul 2019 18:02:58: 8000000 INFO @ Fri, 05 Jul 2019 18:03:01: 8000000 INFO @ Fri, 05 Jul 2019 18:03:04: 8000000 INFO @ Fri, 05 Jul 2019 18:03:11: 9000000 INFO @ Fri, 05 Jul 2019 18:03:14: 9000000 INFO @ Fri, 05 Jul 2019 18:03:15: 9000000 INFO @ Fri, 05 Jul 2019 18:03:23: 10000000 INFO @ Fri, 05 Jul 2019 18:03:27: 10000000 INFO @ Fri, 05 Jul 2019 18:03:28: 10000000 INFO @ Fri, 05 Jul 2019 18:03:36: 11000000 INFO @ Fri, 05 Jul 2019 18:03:40: 11000000 INFO @ Fri, 05 Jul 2019 18:03:41: 11000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 05 Jul 2019 18:03:49: 12000000 INFO @ Fri, 05 Jul 2019 18:03:52: 12000000 INFO @ Fri, 05 Jul 2019 18:03:54: 12000000 INFO @ Fri, 05 Jul 2019 18:04:04: 13000000 INFO @ Fri, 05 Jul 2019 18:04:05: 13000000 INFO @ Fri, 05 Jul 2019 18:04:07: 13000000 BigWig に変換しました。 INFO @ Fri, 05 Jul 2019 18:04:17: 14000000 INFO @ Fri, 05 Jul 2019 18:04:20: 14000000 INFO @ Fri, 05 Jul 2019 18:04:21: 14000000 INFO @ Fri, 05 Jul 2019 18:04:29: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:04:29: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:04:29: #1 total tags in treatment: 7287836 INFO @ Fri, 05 Jul 2019 18:04:29: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:04:29: #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 18:04:29: #1 tags after filtering in treatment: 3709068 INFO @ Fri, 05 Jul 2019 18:04:29: #1 Redundant rate of treatment: 0.49 INFO @ Fri, 05 Jul 2019 18:04:29: #1 finished! INFO @ Fri, 05 Jul 2019 18:04:29: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:04:29: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:04:30: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:04:30: 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 18:04:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.05_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/ERX585699/ERX585699.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:04:32: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:04:32: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:04:32: #1 total tags in treatment: 7287836 INFO @ Fri, 05 Jul 2019 18:04:32: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:04:32: #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 18:04:32: #1 tags after filtering in treatment: 3709068 INFO @ Fri, 05 Jul 2019 18:04:32: #1 Redundant rate of treatment: 0.49 INFO @ Fri, 05 Jul 2019 18:04:32: #1 finished! INFO @ Fri, 05 Jul 2019 18:04:32: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:04:32: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:04:32: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:04:32: 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 18:04:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.10_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/ERX585699/ERX585699.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:04:33: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:04:33: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:04:33: #1 total tags in treatment: 7287836 INFO @ Fri, 05 Jul 2019 18:04:33: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:04:33: #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 18:04:33: #1 tags after filtering in treatment: 3709068 INFO @ Fri, 05 Jul 2019 18:04:33: #1 Redundant rate of treatment: 0.49 INFO @ Fri, 05 Jul 2019 18:04:33: #1 finished! INFO @ Fri, 05 Jul 2019 18:04:33: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:04:33: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:04:33: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:04:33: 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 18:04:33: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.20_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/ERX585699/ERX585699.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585699/ERX585699.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling