Job ID = 9160173 sra ファイルのダウンロード中... Completed: 1650161K bytes transferred in 126 seconds (106954K bits/sec), in 2 files, 3 directories. sra ファイルのダウンロードが完了しました。 Read layout: PAIRED fastq に変換中... Written 17635008 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2831020/SRR5572334.sra Written 17635008 spots total Written 20338653 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2831020/SRR5572335.sra Written 20338653 spots total 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: 00:27:21 37973661 reads; of these: 37973661 (100.00%) were paired; of these: 1056217 (2.78%) aligned concordantly 0 times 34340363 (90.43%) aligned concordantly exactly 1 time 2577081 (6.79%) aligned concordantly >1 times ---- 1056217 pairs aligned concordantly 0 times; of these: 29585 (2.80%) aligned discordantly 1 time ---- 1026632 pairs aligned 0 times concordantly or discordantly; of these: 2053264 mates make up the pairs; of these: 1934807 (94.23%) aligned 0 times 100759 (4.91%) aligned exactly 1 time 17698 (0.86%) aligned >1 times 97.45% overall alignment rate Time searching: 00:27:21 Overall time: 00:27:21 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 32 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] 7238170 / 36933672 = 0.1960 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 @ Wed, 28 Jun 2017 02:47:08: # Command line: callpeak -t SRX2831020.bam -f BAM -g 12100000 -n SRX2831020.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2831020.10 # format = BAM # ChIP-seq file = ['SRX2831020.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 @ Wed, 28 Jun 2017 02:47:08: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:47:08: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:47:08: # Command line: callpeak -t SRX2831020.bam -f BAM -g 12100000 -n SRX2831020.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2831020.20 # format = BAM # ChIP-seq file = ['SRX2831020.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 @ Wed, 28 Jun 2017 02:47:08: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:47:08: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:47:08: # Command line: callpeak -t SRX2831020.bam -f BAM -g 12100000 -n SRX2831020.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2831020.05 # format = BAM # ChIP-seq file = ['SRX2831020.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 @ Wed, 28 Jun 2017 02:47:08: #1 read tag files... INFO @ Wed, 28 Jun 2017 02:47:08: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 02:47:14: 1000000 INFO @ Wed, 28 Jun 2017 02:47:14: 1000000 INFO @ Wed, 28 Jun 2017 02:47:14: 1000000 INFO @ Wed, 28 Jun 2017 02:47:20: 2000000 INFO @ Wed, 28 Jun 2017 02:47:20: 2000000 INFO @ Wed, 28 Jun 2017 02:47:20: 2000000 INFO @ Wed, 28 Jun 2017 02:47:25: 3000000 INFO @ Wed, 28 Jun 2017 02:47:25: 3000000 INFO @ Wed, 28 Jun 2017 02:47:26: 3000000 INFO @ Wed, 28 Jun 2017 02:47:31: 4000000 INFO @ Wed, 28 Jun 2017 02:47:31: 4000000 INFO @ Wed, 28 Jun 2017 02:47:31: 4000000 INFO @ Wed, 28 Jun 2017 02:47:36: 5000000 INFO @ Wed, 28 Jun 2017 02:47:36: 5000000 INFO @ Wed, 28 Jun 2017 02:47:37: 5000000 INFO @ Wed, 28 Jun 2017 02:47:42: 6000000 INFO @ Wed, 28 Jun 2017 02:47:42: 6000000 INFO @ Wed, 28 Jun 2017 02:47:42: 6000000 INFO @ Wed, 28 Jun 2017 02:47:48: 7000000 INFO @ Wed, 28 Jun 2017 02:47:48: 7000000 INFO @ Wed, 28 Jun 2017 02:47:48: 7000000 INFO @ Wed, 28 Jun 2017 02:47:53: 8000000 INFO @ Wed, 28 Jun 2017 02:47:54: 8000000 INFO @ Wed, 28 Jun 2017 02:47:54: 8000000 INFO @ Wed, 28 Jun 2017 02:47:58: 9000000 INFO @ Wed, 28 Jun 2017 02:48:01: 9000000 INFO @ Wed, 28 Jun 2017 02:48:01: 9000000 INFO @ Wed, 28 Jun 2017 02:48:03: 10000000 INFO @ Wed, 28 Jun 2017 02:48:07: 10000000 INFO @ Wed, 28 Jun 2017 02:48:07: 10000000 INFO @ Wed, 28 Jun 2017 02:48:09: 11000000 INFO @ Wed, 28 Jun 2017 02:48:13: 11000000 INFO @ Wed, 28 Jun 2017 02:48:13: 11000000 INFO @ Wed, 28 Jun 2017 02:48:14: 12000000 INFO @ Wed, 28 Jun 2017 02:48:19: 12000000 INFO @ Wed, 28 Jun 2017 02:48:19: 13000000 INFO @ Wed, 28 Jun 2017 02:48:19: 12000000 INFO @ Wed, 28 Jun 2017 02:48:25: 14000000 INFO @ Wed, 28 Jun 2017 02:48:25: 13000000 INFO @ Wed, 28 Jun 2017 02:48:25: 13000000 INFO @ Wed, 28 Jun 2017 02:48:30: 15000000 INFO @ Wed, 28 Jun 2017 02:48:31: 14000000 INFO @ Wed, 28 Jun 2017 02:48:31: 14000000 INFO @ Wed, 28 Jun 2017 02:48:35: 16000000 INFO @ Wed, 28 Jun 2017 02:48:38: 15000000 INFO @ Wed, 28 Jun 2017 02:48:38: 15000000 INFO @ Wed, 28 Jun 2017 02:48:41: 17000000 INFO @ Wed, 28 Jun 2017 02:48:44: 16000000 INFO @ Wed, 28 Jun 2017 02:48:44: 16000000 INFO @ Wed, 28 Jun 2017 02:48:46: 18000000 INFO @ Wed, 28 Jun 2017 02:48:50: 17000000 INFO @ Wed, 28 Jun 2017 02:48:51: 17000000 INFO @ Wed, 28 Jun 2017 02:48:52: 19000000 INFO @ Wed, 28 Jun 2017 02:48:57: 18000000 INFO @ Wed, 28 Jun 2017 02:48:57: 18000000 INFO @ Wed, 28 Jun 2017 02:48:57: 20000000 INFO @ Wed, 28 Jun 2017 02:49:02: 21000000 INFO @ Wed, 28 Jun 2017 02:49:03: 19000000 INFO @ Wed, 28 Jun 2017 02:49:03: 19000000 INFO @ Wed, 28 Jun 2017 02:49:08: 22000000 INFO @ Wed, 28 Jun 2017 02:49:09: 20000000 INFO @ Wed, 28 Jun 2017 02:49:09: 20000000 INFO @ Wed, 28 Jun 2017 02:49:13: 23000000 INFO @ Wed, 28 Jun 2017 02:49:15: 21000000 INFO @ Wed, 28 Jun 2017 02:49:15: 21000000 INFO @ Wed, 28 Jun 2017 02:49:18: 24000000 INFO @ Wed, 28 Jun 2017 02:49:21: 22000000 INFO @ Wed, 28 Jun 2017 02:49:22: 22000000 INFO @ Wed, 28 Jun 2017 02:49:24: 25000000 INFO @ Wed, 28 Jun 2017 02:49:27: 23000000 INFO @ Wed, 28 Jun 2017 02:49:28: 23000000 INFO @ Wed, 28 Jun 2017 02:49:29: 26000000 INFO @ Wed, 28 Jun 2017 02:49:34: 27000000 INFO @ Wed, 28 Jun 2017 02:49:34: 24000000 INFO @ Wed, 28 Jun 2017 02:49:35: 24000000 INFO @ Wed, 28 Jun 2017 02:49:40: 28000000 INFO @ Wed, 28 Jun 2017 02:49:43: 25000000 INFO @ Wed, 28 Jun 2017 02:49:43: 25000000 INFO @ Wed, 28 Jun 2017 02:49:46: 29000000 INFO @ Wed, 28 Jun 2017 02:49:51: 26000000 INFO @ Wed, 28 Jun 2017 02:49:51: 26000000 INFO @ Wed, 28 Jun 2017 02:49:53: 30000000 INFO @ Wed, 28 Jun 2017 02:49:59: 27000000 INFO @ Wed, 28 Jun 2017 02:49:59: 31000000 INFO @ Wed, 28 Jun 2017 02:49:59: 27000000 INFO @ Wed, 28 Jun 2017 02:50:06: 28000000 INFO @ Wed, 28 Jun 2017 02:50:06: 32000000 INFO @ Wed, 28 Jun 2017 02:50:07: 28000000 INFO @ Wed, 28 Jun 2017 02:50:12: 29000000 INFO @ Wed, 28 Jun 2017 02:50:13: 33000000 INFO @ Wed, 28 Jun 2017 02:50:14: 29000000 INFO @ Wed, 28 Jun 2017 02:50:19: 34000000 INFO @ Wed, 28 Jun 2017 02:50:19: 30000000 INFO @ Wed, 28 Jun 2017 02:50:21: 30000000 INFO @ Wed, 28 Jun 2017 02:50:26: 35000000 INFO @ Wed, 28 Jun 2017 02:50:26: 31000000 INFO @ Wed, 28 Jun 2017 02:50:28: 31000000 INFO @ Wed, 28 Jun 2017 02:50:33: 36000000 INFO @ Wed, 28 Jun 2017 02:50:33: 32000000 INFO @ Wed, 28 Jun 2017 02:50:34: 32000000 INFO @ Wed, 28 Jun 2017 02:50:39: 37000000 INFO @ Wed, 28 Jun 2017 02:50:39: 33000000 INFO @ Wed, 28 Jun 2017 02:50:40: 33000000 INFO @ Wed, 28 Jun 2017 02:50:45: 34000000 INFO @ Wed, 28 Jun 2017 02:50:45: 38000000 INFO @ Wed, 28 Jun 2017 02:50:45: 34000000 INFO @ Wed, 28 Jun 2017 02:50:50: 35000000 INFO @ Wed, 28 Jun 2017 02:50:50: 39000000 INFO @ Wed, 28 Jun 2017 02:50:51: 35000000 INFO @ Wed, 28 Jun 2017 02:50:55: 36000000 INFO @ Wed, 28 Jun 2017 02:50:56: 40000000 INFO @ Wed, 28 Jun 2017 02:50:56: 36000000 INFO @ Wed, 28 Jun 2017 02:51:01: 37000000 INFO @ Wed, 28 Jun 2017 02:51:01: 41000000 INFO @ Wed, 28 Jun 2017 02:51:02: 37000000 INFO @ Wed, 28 Jun 2017 02:51:06: 38000000 INFO @ Wed, 28 Jun 2017 02:51:07: 42000000 INFO @ Wed, 28 Jun 2017 02:51:07: 38000000 INFO @ Wed, 28 Jun 2017 02:51:12: 39000000 INFO @ Wed, 28 Jun 2017 02:51:12: 43000000 INFO @ Wed, 28 Jun 2017 02:51:13: 39000000 INFO @ Wed, 28 Jun 2017 02:51:18: 40000000 INFO @ Wed, 28 Jun 2017 02:51:18: 44000000 INFO @ Wed, 28 Jun 2017 02:51:19: 40000000 INFO @ Wed, 28 Jun 2017 02:51:25: 41000000 INFO @ Wed, 28 Jun 2017 02:51:25: 45000000 INFO @ Wed, 28 Jun 2017 02:51:27: 41000000 INFO @ Wed, 28 Jun 2017 02:51:33: 42000000 INFO @ Wed, 28 Jun 2017 02:51:33: 46000000 INFO @ Wed, 28 Jun 2017 02:51:34: 42000000 INFO @ Wed, 28 Jun 2017 02:51:40: 47000000 INFO @ Wed, 28 Jun 2017 02:51:40: 43000000 INFO @ Wed, 28 Jun 2017 02:51:42: 43000000 INFO @ Wed, 28 Jun 2017 02:51:48: 48000000 INFO @ Wed, 28 Jun 2017 02:51:48: 44000000 INFO @ Wed, 28 Jun 2017 02:51:50: 44000000 INFO @ Wed, 28 Jun 2017 02:51:55: 49000000 INFO @ Wed, 28 Jun 2017 02:51:55: 45000000 INFO @ Wed, 28 Jun 2017 02:51:57: 45000000 INFO @ Wed, 28 Jun 2017 02:52:02: 50000000 INFO @ Wed, 28 Jun 2017 02:52:03: 46000000 INFO @ Wed, 28 Jun 2017 02:52:04: 46000000 INFO @ Wed, 28 Jun 2017 02:52:09: 51000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 28 Jun 2017 02:52:10: 47000000 INFO @ Wed, 28 Jun 2017 02:52:11: 47000000 INFO @ Wed, 28 Jun 2017 02:52:15: 52000000 INFO @ Wed, 28 Jun 2017 02:52:16: 48000000 INFO @ Wed, 28 Jun 2017 02:52:16: 48000000 INFO @ Wed, 28 Jun 2017 02:52:21: 53000000 INFO @ Wed, 28 Jun 2017 02:52:22: 49000000 INFO @ Wed, 28 Jun 2017 02:52:22: 49000000 INFO @ Wed, 28 Jun 2017 02:52:26: 54000000 BigWig に変換しました。 INFO @ Wed, 28 Jun 2017 02:52:28: 50000000 INFO @ Wed, 28 Jun 2017 02:52:28: 50000000 INFO @ Wed, 28 Jun 2017 02:52:32: 55000000 INFO @ Wed, 28 Jun 2017 02:52:33: 51000000 INFO @ Wed, 28 Jun 2017 02:52:33: 51000000 INFO @ Wed, 28 Jun 2017 02:52:37: 56000000 INFO @ Wed, 28 Jun 2017 02:52:38: 52000000 INFO @ Wed, 28 Jun 2017 02:52:39: 52000000 INFO @ Wed, 28 Jun 2017 02:52:42: 57000000 INFO @ Wed, 28 Jun 2017 02:52:44: 53000000 INFO @ Wed, 28 Jun 2017 02:52:44: 53000000 INFO @ Wed, 28 Jun 2017 02:52:47: 58000000 INFO @ Wed, 28 Jun 2017 02:52:49: 54000000 INFO @ Wed, 28 Jun 2017 02:52:50: 54000000 INFO @ Wed, 28 Jun 2017 02:52:53: 59000000 INFO @ Wed, 28 Jun 2017 02:52:55: 55000000 INFO @ Wed, 28 Jun 2017 02:52:56: 55000000 INFO @ Wed, 28 Jun 2017 02:52:56: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:52:56: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:52:56: #1 total tags in treatment: 29681082 INFO @ Wed, 28 Jun 2017 02:52:56: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:52:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 02:52:57: #1 tags after filtering in treatment: 9369952 INFO @ Wed, 28 Jun 2017 02:52:57: #1 Redundant rate of treatment: 0.68 INFO @ Wed, 28 Jun 2017 02:52:57: #1 finished! INFO @ Wed, 28 Jun 2017 02:52:57: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:52:57: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:52:58: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:52:58: 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 @ Wed, 28 Jun 2017 02:52:58: Process for pairing-model is terminated! cat: SRX2831020.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2831020.10_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2831020.10_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2831020.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Wed, 28 Jun 2017 02:53:00: 56000000 INFO @ Wed, 28 Jun 2017 02:53:01: 56000000 INFO @ Wed, 28 Jun 2017 02:53:06: 57000000 INFO @ Wed, 28 Jun 2017 02:53:06: 57000000 INFO @ Wed, 28 Jun 2017 02:53:11: 58000000 INFO @ Wed, 28 Jun 2017 02:53:12: 58000000 INFO @ Wed, 28 Jun 2017 02:53:16: 59000000 INFO @ Wed, 28 Jun 2017 02:53:17: 59000000 INFO @ Wed, 28 Jun 2017 02:53:20: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:53:20: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:53:20: #1 total tags in treatment: 29681082 INFO @ Wed, 28 Jun 2017 02:53:20: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:53:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 02:53:20: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 02:53:20: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 02:53:20: #1 total tags in treatment: 29681082 INFO @ Wed, 28 Jun 2017 02:53:20: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 02:53:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 02:53:21: #1 tags after filtering in treatment: 9369952 INFO @ Wed, 28 Jun 2017 02:53:21: #1 Redundant rate of treatment: 0.68 INFO @ Wed, 28 Jun 2017 02:53:21: #1 finished! INFO @ Wed, 28 Jun 2017 02:53:21: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:53:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:53:21: #1 tags after filtering in treatment: 9369952 INFO @ Wed, 28 Jun 2017 02:53:21: #1 Redundant rate of treatment: 0.68 INFO @ Wed, 28 Jun 2017 02:53:21: #1 finished! INFO @ Wed, 28 Jun 2017 02:53:21: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 02:53:21: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 02:53:22: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:53:22: 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 @ Wed, 28 Jun 2017 02:53:22: Process for pairing-model is terminated! cat: SRX2831020.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Wed, 28 Jun 2017 02:53:22: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 02:53:22: 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 @ Wed, 28 Jun 2017 02:53:22: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2831020.05_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2831020.05_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2831020.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling cat: SRX2831020.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2831020.20_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2831020.20_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2831020.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling