Job ID = 2011689 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... spots read : 20,259,756 reads read : 40,519,512 reads written : 40,519,512 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: 00:30:53 20259756 reads; of these: 20259756 (100.00%) were paired; of these: 3914846 (19.32%) aligned concordantly 0 times 13725208 (67.75%) aligned concordantly exactly 1 time 2619702 (12.93%) aligned concordantly >1 times ---- 3914846 pairs aligned concordantly 0 times; of these: 1953982 (49.91%) aligned discordantly 1 time ---- 1960864 pairs aligned 0 times concordantly or discordantly; of these: 3921728 mates make up the pairs; of these: 2791368 (71.18%) aligned 0 times 324776 (8.28%) aligned exactly 1 time 805584 (20.54%) aligned >1 times 93.11% overall alignment rate Time searching: 00:30:53 Overall time: 00:30:53 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 24 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] 823014 / 18180961 = 0.0453 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 @ Sat, 06 Jul 2019 03:33:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.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 @ Sat, 06 Jul 2019 03:33:03: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:33:03: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:33:04: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.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 @ Sat, 06 Jul 2019 03:33:04: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:33:04: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:33:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.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 @ Sat, 06 Jul 2019 03:33:05: #1 read tag files... INFO @ Sat, 06 Jul 2019 03:33:05: #1 read treatment tags... INFO @ Sat, 06 Jul 2019 03:33:19: 1000000 INFO @ Sat, 06 Jul 2019 03:33:19: 1000000 INFO @ Sat, 06 Jul 2019 03:33:20: 1000000 INFO @ Sat, 06 Jul 2019 03:33:32: 2000000 INFO @ Sat, 06 Jul 2019 03:33:34: 2000000 INFO @ Sat, 06 Jul 2019 03:33:35: 2000000 INFO @ Sat, 06 Jul 2019 03:33:46: 3000000 INFO @ Sat, 06 Jul 2019 03:33:49: 3000000 INFO @ Sat, 06 Jul 2019 03:33:49: 3000000 INFO @ Sat, 06 Jul 2019 03:34:00: 4000000 INFO @ Sat, 06 Jul 2019 03:34:03: 4000000 INFO @ Sat, 06 Jul 2019 03:34:04: 4000000 INFO @ Sat, 06 Jul 2019 03:34:13: 5000000 INFO @ Sat, 06 Jul 2019 03:34:18: 5000000 INFO @ Sat, 06 Jul 2019 03:34:18: 5000000 INFO @ Sat, 06 Jul 2019 03:34:27: 6000000 INFO @ Sat, 06 Jul 2019 03:34:32: 6000000 INFO @ Sat, 06 Jul 2019 03:34:33: 6000000 INFO @ Sat, 06 Jul 2019 03:34:40: 7000000 INFO @ Sat, 06 Jul 2019 03:34:46: 7000000 INFO @ Sat, 06 Jul 2019 03:34:47: 7000000 INFO @ Sat, 06 Jul 2019 03:34:54: 8000000 INFO @ Sat, 06 Jul 2019 03:35:01: 8000000 INFO @ Sat, 06 Jul 2019 03:35:02: 8000000 INFO @ Sat, 06 Jul 2019 03:35:08: 9000000 INFO @ Sat, 06 Jul 2019 03:35:15: 9000000 INFO @ Sat, 06 Jul 2019 03:35:16: 9000000 INFO @ Sat, 06 Jul 2019 03:35:21: 10000000 INFO @ Sat, 06 Jul 2019 03:35:29: 10000000 INFO @ Sat, 06 Jul 2019 03:35:30: 10000000 INFO @ Sat, 06 Jul 2019 03:35:35: 11000000 INFO @ Sat, 06 Jul 2019 03:35:44: 11000000 INFO @ Sat, 06 Jul 2019 03:35:45: 11000000 INFO @ Sat, 06 Jul 2019 03:35:48: 12000000 INFO @ Sat, 06 Jul 2019 03:35:58: 12000000 INFO @ Sat, 06 Jul 2019 03:35:59: 12000000 INFO @ Sat, 06 Jul 2019 03:36:02: 13000000 INFO @ Sat, 06 Jul 2019 03:36:12: 13000000 INFO @ Sat, 06 Jul 2019 03:36:13: 13000000 INFO @ Sat, 06 Jul 2019 03:36:15: 14000000 INFO @ Sat, 06 Jul 2019 03:36:27: 14000000 INFO @ Sat, 06 Jul 2019 03:36:28: 14000000 INFO @ Sat, 06 Jul 2019 03:36:29: 15000000 INFO @ Sat, 06 Jul 2019 03:36:41: 15000000 INFO @ Sat, 06 Jul 2019 03:36:42: 15000000 INFO @ Sat, 06 Jul 2019 03:36:43: 16000000 INFO @ Sat, 06 Jul 2019 03:36:56: 16000000 INFO @ Sat, 06 Jul 2019 03:36:56: 17000000 INFO @ Sat, 06 Jul 2019 03:36:57: 16000000 INFO @ Sat, 06 Jul 2019 03:37:10: 18000000 INFO @ Sat, 06 Jul 2019 03:37:10: 17000000 INFO @ Sat, 06 Jul 2019 03:37:11: 17000000 INFO @ Sat, 06 Jul 2019 03:37:23: 19000000 INFO @ Sat, 06 Jul 2019 03:37:25: 18000000 INFO @ Sat, 06 Jul 2019 03:37:25: 18000000 INFO @ Sat, 06 Jul 2019 03:37:37: 20000000 INFO @ Sat, 06 Jul 2019 03:37:39: 19000000 INFO @ Sat, 06 Jul 2019 03:37:40: 19000000 INFO @ Sat, 06 Jul 2019 03:37:51: 21000000 INFO @ Sat, 06 Jul 2019 03:37:54: 20000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 06 Jul 2019 03:37:55: 20000000 INFO @ Sat, 06 Jul 2019 03:38:04: 22000000 INFO @ Sat, 06 Jul 2019 03:38:09: 21000000 INFO @ Sat, 06 Jul 2019 03:38:10: 21000000 BigWig に変換しました。 INFO @ Sat, 06 Jul 2019 03:38:18: 23000000 INFO @ Sat, 06 Jul 2019 03:38:24: 22000000 INFO @ Sat, 06 Jul 2019 03:38:25: 22000000 INFO @ Sat, 06 Jul 2019 03:38:31: 24000000 INFO @ Sat, 06 Jul 2019 03:38:39: 23000000 INFO @ Sat, 06 Jul 2019 03:38:40: 23000000 INFO @ Sat, 06 Jul 2019 03:38:45: 25000000 INFO @ Sat, 06 Jul 2019 03:38:55: 24000000 INFO @ Sat, 06 Jul 2019 03:38:55: 24000000 INFO @ Sat, 06 Jul 2019 03:38:57: 26000000 INFO @ Sat, 06 Jul 2019 03:39:10: 25000000 INFO @ Sat, 06 Jul 2019 03:39:10: 25000000 INFO @ Sat, 06 Jul 2019 03:39:11: 27000000 INFO @ Sat, 06 Jul 2019 03:39:25: 28000000 INFO @ Sat, 06 Jul 2019 03:39:25: 26000000 INFO @ Sat, 06 Jul 2019 03:39:25: 26000000 INFO @ Sat, 06 Jul 2019 03:39:39: 29000000 INFO @ Sat, 06 Jul 2019 03:39:40: 27000000 INFO @ Sat, 06 Jul 2019 03:39:40: 27000000 INFO @ Sat, 06 Jul 2019 03:39:54: 30000000 INFO @ Sat, 06 Jul 2019 03:39:56: 28000000 INFO @ Sat, 06 Jul 2019 03:39:56: 28000000 INFO @ Sat, 06 Jul 2019 03:40:08: 31000000 INFO @ Sat, 06 Jul 2019 03:40:11: 29000000 INFO @ Sat, 06 Jul 2019 03:40:11: 29000000 INFO @ Sat, 06 Jul 2019 03:40:23: 32000000 INFO @ Sat, 06 Jul 2019 03:40:26: 30000000 INFO @ Sat, 06 Jul 2019 03:40:26: 30000000 INFO @ Sat, 06 Jul 2019 03:40:37: 33000000 INFO @ Sat, 06 Jul 2019 03:40:41: 31000000 INFO @ Sat, 06 Jul 2019 03:40:41: 31000000 INFO @ Sat, 06 Jul 2019 03:40:51: 34000000 INFO @ Sat, 06 Jul 2019 03:40:56: 32000000 INFO @ Sat, 06 Jul 2019 03:40:56: 32000000 INFO @ Sat, 06 Jul 2019 03:41:06: 35000000 INFO @ Sat, 06 Jul 2019 03:41:11: 33000000 INFO @ Sat, 06 Jul 2019 03:41:11: 33000000 INFO @ Sat, 06 Jul 2019 03:41:20: 36000000 INFO @ Sat, 06 Jul 2019 03:41:21: #1 tag size is determined as 126 bps INFO @ Sat, 06 Jul 2019 03:41:21: #1 tag size = 126 INFO @ Sat, 06 Jul 2019 03:41:21: #1 total tags in treatment: 15578396 INFO @ Sat, 06 Jul 2019 03:41:21: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:41:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 03:41:21: #1 tags after filtering in treatment: 10304770 INFO @ Sat, 06 Jul 2019 03:41:21: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 06 Jul 2019 03:41:21: #1 finished! INFO @ Sat, 06 Jul 2019 03:41:21: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:41:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:41:22: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 03:41:22: 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 @ Sat, 06 Jul 2019 03:41:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.10_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/SRX4560570/SRX4560570.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 03:41:26: 34000000 INFO @ Sat, 06 Jul 2019 03:41:26: 34000000 INFO @ Sat, 06 Jul 2019 03:41:40: 35000000 INFO @ Sat, 06 Jul 2019 03:41:41: 35000000 INFO @ Sat, 06 Jul 2019 03:41:55: 36000000 INFO @ Sat, 06 Jul 2019 03:41:56: 36000000 INFO @ Sat, 06 Jul 2019 03:41:56: #1 tag size is determined as 126 bps INFO @ Sat, 06 Jul 2019 03:41:56: #1 tag size = 126 INFO @ Sat, 06 Jul 2019 03:41:56: #1 total tags in treatment: 15578396 INFO @ Sat, 06 Jul 2019 03:41:56: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:41:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 03:41:56: #1 tags after filtering in treatment: 10304770 INFO @ Sat, 06 Jul 2019 03:41:56: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 06 Jul 2019 03:41:56: #1 finished! INFO @ Sat, 06 Jul 2019 03:41:56: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:41:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:41:57: #1 tag size is determined as 126 bps INFO @ Sat, 06 Jul 2019 03:41:57: #1 tag size = 126 INFO @ Sat, 06 Jul 2019 03:41:57: #1 total tags in treatment: 15578396 INFO @ Sat, 06 Jul 2019 03:41:57: #1 user defined the maximum tags... INFO @ Sat, 06 Jul 2019 03:41:57: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 06 Jul 2019 03:41:57: #1 tags after filtering in treatment: 10304770 INFO @ Sat, 06 Jul 2019 03:41:57: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 06 Jul 2019 03:41:57: #1 finished! INFO @ Sat, 06 Jul 2019 03:41:57: #2 Build Peak Model... INFO @ Sat, 06 Jul 2019 03:41:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 06 Jul 2019 03:41:57: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 03:41:57: 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 @ Sat, 06 Jul 2019 03:41:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.05_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/SRX4560570/SRX4560570.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 06 Jul 2019 03:41:58: #2 number of paired peaks: 0 WARNING @ Sat, 06 Jul 2019 03:41:58: 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 @ Sat, 06 Jul 2019 03:41:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.20_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/SRX4560570/SRX4560570.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4560570/SRX4560570.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling