Job ID = 9162098 sra ファイルのダウンロード中... Completed: 1193178K bytes transferred in 12 seconds (814371K bits/sec), in 1 file, 2 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 27667467 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1631832/SRR3225760.sra Written 27667467 spots total rm: cannot remove `[DSE]RR*.fastq': そのようなファイルやディレクトリはありません 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: 00:24:42 27667467 reads; of these: 27667467 (100.00%) were paired; of these: 1192477 (4.31%) aligned concordantly 0 times 21045719 (76.07%) aligned concordantly exactly 1 time 5429271 (19.62%) aligned concordantly >1 times ---- 1192477 pairs aligned concordantly 0 times; of these: 419638 (35.19%) aligned discordantly 1 time ---- 772839 pairs aligned 0 times concordantly or discordantly; of these: 1545678 mates make up the pairs; of these: 960038 (62.11%) aligned 0 times 179813 (11.63%) aligned exactly 1 time 405827 (26.26%) aligned >1 times 98.27% overall alignment rate Time searching: 00:24:42 Overall time: 00:24:42 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] 2046946 / 26780475 = 0.0764 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 06:29:45: # Command line: callpeak -t SRX1631832.bam -f BAM -g 12100000 -n SRX1631832.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1631832.05 # format = BAM # ChIP-seq file = ['SRX1631832.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 06:29:45: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:29:45: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:29:45: # Command line: callpeak -t SRX1631832.bam -f BAM -g 12100000 -n SRX1631832.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1631832.20 # format = BAM # ChIP-seq file = ['SRX1631832.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 06:29:45: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:29:45: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:29:45: # Command line: callpeak -t SRX1631832.bam -f BAM -g 12100000 -n SRX1631832.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1631832.10 # format = BAM # ChIP-seq file = ['SRX1631832.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 06:29:45: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:29:45: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:29:51: 1000000 INFO @ Wed, 28 Jun 2017 06:29:51: 1000000 INFO @ Wed, 28 Jun 2017 06:29:51: 1000000 INFO @ Wed, 28 Jun 2017 06:29:58: 2000000 INFO @ Wed, 28 Jun 2017 06:29:58: 2000000 INFO @ Wed, 28 Jun 2017 06:29:58: 2000000 INFO @ Wed, 28 Jun 2017 06:30:05: 3000000 INFO @ Wed, 28 Jun 2017 06:30:05: 3000000 INFO @ Wed, 28 Jun 2017 06:30:05: 3000000 INFO @ Wed, 28 Jun 2017 06:30:11: 4000000 INFO @ Wed, 28 Jun 2017 06:30:11: 4000000 INFO @ Wed, 28 Jun 2017 06:30:11: 4000000 INFO @ Wed, 28 Jun 2017 06:30:18: 5000000 INFO @ Wed, 28 Jun 2017 06:30:18: 5000000 INFO @ Wed, 28 Jun 2017 06:30:18: 5000000 INFO @ Wed, 28 Jun 2017 06:30:25: 6000000 INFO @ Wed, 28 Jun 2017 06:30:25: 6000000 INFO @ Wed, 28 Jun 2017 06:30:25: 6000000 INFO @ Wed, 28 Jun 2017 06:30:31: 7000000 INFO @ Wed, 28 Jun 2017 06:30:31: 7000000 INFO @ Wed, 28 Jun 2017 06:30:32: 7000000 INFO @ Wed, 28 Jun 2017 06:30:38: 8000000 INFO @ Wed, 28 Jun 2017 06:30:38: 8000000 INFO @ Wed, 28 Jun 2017 06:30:38: 8000000 INFO @ Wed, 28 Jun 2017 06:30:45: 9000000 INFO @ Wed, 28 Jun 2017 06:30:45: 9000000 INFO @ Wed, 28 Jun 2017 06:30:45: 9000000 INFO @ Wed, 28 Jun 2017 06:30:52: 10000000 INFO @ Wed, 28 Jun 2017 06:30:52: 10000000 INFO @ Wed, 28 Jun 2017 06:30:53: 10000000 INFO @ Wed, 28 Jun 2017 06:31:00: 11000000 INFO @ Wed, 28 Jun 2017 06:31:00: 11000000 INFO @ Wed, 28 Jun 2017 06:31:00: 11000000 INFO @ Wed, 28 Jun 2017 06:31:08: 12000000 INFO @ Wed, 28 Jun 2017 06:31:08: 12000000 INFO @ Wed, 28 Jun 2017 06:31:08: 12000000 INFO @ Wed, 28 Jun 2017 06:31:15: 13000000 INFO @ Wed, 28 Jun 2017 06:31:17: 13000000 INFO @ Wed, 28 Jun 2017 06:31:17: 13000000 INFO @ Wed, 28 Jun 2017 06:31:23: 14000000 INFO @ Wed, 28 Jun 2017 06:31:25: 14000000 INFO @ Wed, 28 Jun 2017 06:31:26: 14000000 INFO @ Wed, 28 Jun 2017 06:31:31: 15000000 INFO @ Wed, 28 Jun 2017 06:31:34: 15000000 INFO @ Wed, 28 Jun 2017 06:31:35: 15000000 INFO @ Wed, 28 Jun 2017 06:31:39: 16000000 INFO @ Wed, 28 Jun 2017 06:31:42: 16000000 INFO @ Wed, 28 Jun 2017 06:31:44: 16000000 INFO @ Wed, 28 Jun 2017 06:31:46: 17000000 INFO @ Wed, 28 Jun 2017 06:31:51: 17000000 INFO @ Wed, 28 Jun 2017 06:31:53: 17000000 INFO @ Wed, 28 Jun 2017 06:31:54: 18000000 INFO @ Wed, 28 Jun 2017 06:31:59: 18000000 INFO @ Wed, 28 Jun 2017 06:32:02: 19000000 INFO @ Wed, 28 Jun 2017 06:32:02: 18000000 INFO @ Wed, 28 Jun 2017 06:32:08: 19000000 INFO @ Wed, 28 Jun 2017 06:32:09: 20000000 INFO @ Wed, 28 Jun 2017 06:32:11: 19000000 INFO @ Wed, 28 Jun 2017 06:32:16: 20000000 INFO @ Wed, 28 Jun 2017 06:32:17: 21000000 INFO @ Wed, 28 Jun 2017 06:32:21: 20000000 INFO @ Wed, 28 Jun 2017 06:32:25: 21000000 INFO @ Wed, 28 Jun 2017 06:32:25: 22000000 INFO @ Wed, 28 Jun 2017 06:32:30: 21000000 INFO @ Wed, 28 Jun 2017 06:32:33: 23000000 INFO @ Wed, 28 Jun 2017 06:32:33: 22000000 INFO @ Wed, 28 Jun 2017 06:32:39: 22000000 INFO @ Wed, 28 Jun 2017 06:32:41: 24000000 INFO @ Wed, 28 Jun 2017 06:32:41: 23000000 INFO @ Wed, 28 Jun 2017 06:32:48: 23000000 INFO @ Wed, 28 Jun 2017 06:32:48: 25000000 INFO @ Wed, 28 Jun 2017 06:32:50: 24000000 INFO @ Wed, 28 Jun 2017 06:32:56: 26000000 INFO @ Wed, 28 Jun 2017 06:32:57: 24000000 INFO @ Wed, 28 Jun 2017 06:32:59: 25000000 INFO @ Wed, 28 Jun 2017 06:33:04: 27000000 INFO @ Wed, 28 Jun 2017 06:33:07: 25000000 INFO @ Wed, 28 Jun 2017 06:33:08: 26000000 INFO @ Wed, 28 Jun 2017 06:33:12: 28000000 INFO @ Wed, 28 Jun 2017 06:33:15: 27000000 INFO @ Wed, 28 Jun 2017 06:33:16: 26000000 INFO @ Wed, 28 Jun 2017 06:33:19: 29000000 INFO @ Wed, 28 Jun 2017 06:33:22: 28000000 INFO @ Wed, 28 Jun 2017 06:33:24: 27000000 INFO @ Wed, 28 Jun 2017 06:33:26: 30000000 INFO @ Wed, 28 Jun 2017 06:33:29: 29000000 INFO @ Wed, 28 Jun 2017 06:33:33: 28000000 INFO @ Wed, 28 Jun 2017 06:33:34: 31000000 INFO @ Wed, 28 Jun 2017 06:33:36: 30000000 INFO @ Wed, 28 Jun 2017 06:33:41: 32000000 INFO @ Wed, 28 Jun 2017 06:33:41: 29000000 INFO @ Wed, 28 Jun 2017 06:33:43: 31000000 INFO @ Wed, 28 Jun 2017 06:33:48: 33000000 INFO @ Wed, 28 Jun 2017 06:33:50: 30000000 INFO @ Wed, 28 Jun 2017 06:33:50: 32000000 INFO @ Wed, 28 Jun 2017 06:33:55: 34000000 INFO @ Wed, 28 Jun 2017 06:33:57: 33000000 INFO @ Wed, 28 Jun 2017 06:33:58: 31000000 INFO @ Wed, 28 Jun 2017 06:34:03: 35000000 INFO @ Wed, 28 Jun 2017 06:34:05: 34000000 INFO @ Wed, 28 Jun 2017 06:34:07: 32000000 INFO @ Wed, 28 Jun 2017 06:34:10: 36000000 INFO @ Wed, 28 Jun 2017 06:34:11: 35000000 INFO @ Wed, 28 Jun 2017 06:34:15: 33000000 INFO @ Wed, 28 Jun 2017 06:34:17: 37000000 INFO @ Wed, 28 Jun 2017 06:34:18: 36000000 INFO @ Wed, 28 Jun 2017 06:34:24: 34000000 INFO @ Wed, 28 Jun 2017 06:34:24: 38000000 INFO @ Wed, 28 Jun 2017 06:34:25: 37000000 INFO @ Wed, 28 Jun 2017 06:34:32: 39000000 INFO @ Wed, 28 Jun 2017 06:34:32: 38000000 INFO @ Wed, 28 Jun 2017 06:34:32: 35000000 INFO @ Wed, 28 Jun 2017 06:34:37: 39000000 INFO @ Wed, 28 Jun 2017 06:34:39: 40000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 28 Jun 2017 06:34:41: 36000000 INFO @ Wed, 28 Jun 2017 06:34:43: 40000000 INFO @ Wed, 28 Jun 2017 06:34:46: 41000000 INFO @ Wed, 28 Jun 2017 06:34:48: 41000000 INFO @ Wed, 28 Jun 2017 06:34:49: 37000000 INFO @ Wed, 28 Jun 2017 06:34:53: 42000000 INFO @ Wed, 28 Jun 2017 06:34:54: 42000000 INFO @ Wed, 28 Jun 2017 06:34:58: 38000000 INFO @ Wed, 28 Jun 2017 06:34:59: 43000000 BigWig に変換しました。 INFO @ Wed, 28 Jun 2017 06:35:01: 43000000 INFO @ Wed, 28 Jun 2017 06:35:05: 44000000 INFO @ Wed, 28 Jun 2017 06:35:06: 39000000 INFO @ Wed, 28 Jun 2017 06:35:08: 44000000 INFO @ Wed, 28 Jun 2017 06:35:10: 45000000 INFO @ Wed, 28 Jun 2017 06:35:13: 40000000 INFO @ Wed, 28 Jun 2017 06:35:14: 45000000 INFO @ Wed, 28 Jun 2017 06:35:16: 46000000 INFO @ Wed, 28 Jun 2017 06:35:20: 41000000 INFO @ Wed, 28 Jun 2017 06:35:20: 46000000 INFO @ Wed, 28 Jun 2017 06:35:21: 47000000 INFO @ Wed, 28 Jun 2017 06:35:26: 42000000 INFO @ Wed, 28 Jun 2017 06:35:26: 47000000 INFO @ Wed, 28 Jun 2017 06:35:27: 48000000 INFO @ Wed, 28 Jun 2017 06:35:32: 49000000 INFO @ Wed, 28 Jun 2017 06:35:33: 48000000 INFO @ Wed, 28 Jun 2017 06:35:34: 43000000 INFO @ Wed, 28 Jun 2017 06:35:38: 50000000 INFO @ Wed, 28 Jun 2017 06:35:39: 49000000 INFO @ Wed, 28 Jun 2017 06:35:39: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:35:39: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:35:39: #1 total tags in treatment: 24430125 INFO @ Wed, 28 Jun 2017 06:35:39: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:35:39: #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 06:35:40: #1 tags after filtering in treatment: 11069512 INFO @ Wed, 28 Jun 2017 06:35:40: #1 Redundant rate of treatment: 0.55 INFO @ Wed, 28 Jun 2017 06:35:40: #1 finished! INFO @ Wed, 28 Jun 2017 06:35:40: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:35:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:35:41: 44000000 INFO @ Wed, 28 Jun 2017 06:35:41: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:35:41: 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 06:35:41: Process for pairing-model is terminated! cat: SRX1631832.20_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 `SRX1631832.20_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 `SRX1631832.20_*.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 `SRX1631832.20_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 INFO @ Wed, 28 Jun 2017 06:35:45: 50000000 INFO @ Wed, 28 Jun 2017 06:35:47: 45000000 INFO @ Wed, 28 Jun 2017 06:35:47: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:35:47: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:35:47: #1 total tags in treatment: 24430125 INFO @ Wed, 28 Jun 2017 06:35:47: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:35:47: #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 06:35:48: #1 tags after filtering in treatment: 11069512 INFO @ Wed, 28 Jun 2017 06:35:48: #1 Redundant rate of treatment: 0.55 INFO @ Wed, 28 Jun 2017 06:35:48: #1 finished! INFO @ Wed, 28 Jun 2017 06:35:48: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:35:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:35:49: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:35:49: 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 06:35:49: Process for pairing-model is terminated! cat: SRX1631832.10_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 `SRX1631832.10_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 `SRX1631832.10_*.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 `SRX1631832.10_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 06:35:53: 46000000 INFO @ Wed, 28 Jun 2017 06:35:58: 47000000 INFO @ Wed, 28 Jun 2017 06:36:04: 48000000 INFO @ Wed, 28 Jun 2017 06:36:09: 49000000 INFO @ Wed, 28 Jun 2017 06:36:15: 50000000 INFO @ Wed, 28 Jun 2017 06:36:17: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:36:17: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:36:17: #1 total tags in treatment: 24430125 INFO @ Wed, 28 Jun 2017 06:36:17: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:36:17: #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 06:36:18: #1 tags after filtering in treatment: 11069512 INFO @ Wed, 28 Jun 2017 06:36:18: #1 Redundant rate of treatment: 0.55 INFO @ Wed, 28 Jun 2017 06:36:18: #1 finished! INFO @ Wed, 28 Jun 2017 06:36:18: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:36:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:36:18: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:36:18: 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 @ Wed, 28 Jun 2017 06:36:18: Process for pairing-model is terminated! cat: SRX1631832.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1631832.05_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 `SRX1631832.05_*.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 `SRX1631832.05_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