Job ID = 2008278 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 7,580,512 reads read : 15,161,024 reads written : 15,161,024 rm: cannot remove ‘[DSE]RR*’: No such file or directory rm: cannot remove ‘/home/okishinya/ncbi/public/sra/ERR628973.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: 00:09:45 7580512 reads; of these: 7580512 (100.00%) were paired; of these: 555679 (7.33%) aligned concordantly 0 times 6057436 (79.91%) aligned concordantly exactly 1 time 967397 (12.76%) aligned concordantly >1 times ---- 555679 pairs aligned concordantly 0 times; of these: 184824 (33.26%) aligned discordantly 1 time ---- 370855 pairs aligned 0 times concordantly or discordantly; of these: 741710 mates make up the pairs; of these: 634662 (85.57%) aligned 0 times 45868 (6.18%) aligned exactly 1 time 61180 (8.25%) aligned >1 times 95.81% overall alignment rate Time searching: 00:09:45 Overall time: 00:09:45 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] 1152399 / 7176324 = 0.1606 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 18:41:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.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 18:41:13: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:41:13: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:41:14: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.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 18:41:14: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:41:14: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:41:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.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 18:41:15: #1 read tag files... INFO @ Fri, 05 Jul 2019 18:41:15: #1 read treatment tags... INFO @ Fri, 05 Jul 2019 18:41:25: 1000000 INFO @ Fri, 05 Jul 2019 18:41:27: 1000000 INFO @ Fri, 05 Jul 2019 18:41:29: 1000000 INFO @ Fri, 05 Jul 2019 18:41:36: 2000000 INFO @ Fri, 05 Jul 2019 18:41:39: 2000000 INFO @ Fri, 05 Jul 2019 18:41:43: 2000000 INFO @ Fri, 05 Jul 2019 18:41:47: 3000000 INFO @ Fri, 05 Jul 2019 18:41:52: 3000000 INFO @ Fri, 05 Jul 2019 18:41:57: 3000000 INFO @ Fri, 05 Jul 2019 18:41:58: 4000000 INFO @ Fri, 05 Jul 2019 18:42:05: 4000000 INFO @ Fri, 05 Jul 2019 18:42:10: 5000000 INFO @ Fri, 05 Jul 2019 18:42:10: 4000000 INFO @ Fri, 05 Jul 2019 18:42:17: 5000000 INFO @ Fri, 05 Jul 2019 18:42:21: 6000000 INFO @ Fri, 05 Jul 2019 18:42:24: 5000000 INFO @ Fri, 05 Jul 2019 18:42:30: 6000000 INFO @ Fri, 05 Jul 2019 18:42:32: 7000000 INFO @ Fri, 05 Jul 2019 18:42:38: 6000000 INFO @ Fri, 05 Jul 2019 18:42:43: 7000000 INFO @ Fri, 05 Jul 2019 18:42:43: 8000000 INFO @ Fri, 05 Jul 2019 18:42:51: 7000000 INFO @ Fri, 05 Jul 2019 18:42:54: 9000000 INFO @ Fri, 05 Jul 2019 18:42:55: 8000000 INFO @ Fri, 05 Jul 2019 18:43:05: 8000000 INFO @ Fri, 05 Jul 2019 18:43:06: 10000000 INFO @ Fri, 05 Jul 2019 18:43:08: 9000000 INFO @ Fri, 05 Jul 2019 18:43:17: 11000000 INFO @ Fri, 05 Jul 2019 18:43:19: 9000000 INFO @ Fri, 05 Jul 2019 18:43:20: 10000000 INFO @ Fri, 05 Jul 2019 18:43:29: 12000000 INFO @ Fri, 05 Jul 2019 18:43:31: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:43:31: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:43:31: #1 total tags in treatment: 5878229 INFO @ Fri, 05 Jul 2019 18:43:31: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:43:31: #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 18:43:32: #1 tags after filtering in treatment: 3580330 INFO @ Fri, 05 Jul 2019 18:43:32: #1 Redundant rate of treatment: 0.39 INFO @ Fri, 05 Jul 2019 18:43:32: #1 finished! INFO @ Fri, 05 Jul 2019 18:43:32: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:43:32: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:43:32: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:43:32: 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 18:43:32: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:43:32: 10000000 cut: /home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.05_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/ERX585799/ERX585799.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 05 Jul 2019 18:43:33: 11000000 INFO @ Fri, 05 Jul 2019 18:43:45: 12000000 INFO @ Fri, 05 Jul 2019 18:43:45: 11000000 INFO @ Fri, 05 Jul 2019 18:43:48: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:43:48: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:43:48: #1 total tags in treatment: 5878229 INFO @ Fri, 05 Jul 2019 18:43:48: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:43:48: #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 18:43:48: #1 tags after filtering in treatment: 3580330 INFO @ Fri, 05 Jul 2019 18:43:48: #1 Redundant rate of treatment: 0.39 INFO @ Fri, 05 Jul 2019 18:43:48: #1 finished! INFO @ Fri, 05 Jul 2019 18:43:48: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:43:48: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:43:48: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:43:48: 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 18:43:48: Process for pairing-model is terminated! INFO @ Fri, 05 Jul 2019 18:43:57: 12000000 INFO @ Fri, 05 Jul 2019 18:44:00: #1 tag size is determined as 94 bps INFO @ Fri, 05 Jul 2019 18:44:00: #1 tag size = 94 INFO @ Fri, 05 Jul 2019 18:44:00: #1 total tags in treatment: 5878229 INFO @ Fri, 05 Jul 2019 18:44:00: #1 user defined the maximum tags... INFO @ Fri, 05 Jul 2019 18:44:00: #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 18:44:00: #1 tags after filtering in treatment: 3580330 INFO @ Fri, 05 Jul 2019 18:44:00: #1 Redundant rate of treatment: 0.39 INFO @ Fri, 05 Jul 2019 18:44:00: #1 finished! INFO @ Fri, 05 Jul 2019 18:44:00: #2 Build Peak Model... INFO @ Fri, 05 Jul 2019 18:44:00: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 05 Jul 2019 18:44:00: #2 number of paired peaks: 0 WARNING @ Fri, 05 Jul 2019 18:44:00: 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 18:44:00: Process for pairing-model is terminated! BedGraph に変換しました。 cut: /home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.10_peaks.narrowPeak: No such file or directory cut: /home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.20_peaks.narrowPeak: No such file or directory BigWig に変換中... pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX585799/ERX585799.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。