Job ID = 9162100 sra ファイルのダウンロード中... Completed: 1143050K bytes transferred in 12 seconds (759496K 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 26826385 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1631834/SRR3225762.sra Written 26826385 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: 00:22:02 26826385 reads; of these: 26826385 (100.00%) were paired; of these: 1378951 (5.14%) aligned concordantly 0 times 22018524 (82.08%) aligned concordantly exactly 1 time 3428910 (12.78%) aligned concordantly >1 times ---- 1378951 pairs aligned concordantly 0 times; of these: 262714 (19.05%) aligned discordantly 1 time ---- 1116237 pairs aligned 0 times concordantly or discordantly; of these: 2232474 mates make up the pairs; of these: 1940466 (86.92%) aligned 0 times 149176 (6.68%) aligned exactly 1 time 142832 (6.40%) aligned >1 times 96.38% overall alignment rate Time searching: 00:22:02 Overall time: 00:22:02 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] 709347 / 25557863 = 0.0278 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 06:27:16: # Command line: callpeak -t SRX1631834.bam -f BAM -g 12100000 -n SRX1631834.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1631834.10 # format = BAM # ChIP-seq file = ['SRX1631834.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 06:27:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:27:16: # Command line: callpeak -t SRX1631834.bam -f BAM -g 12100000 -n SRX1631834.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1631834.20 # format = BAM # ChIP-seq file = ['SRX1631834.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 06:27:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:27:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:27:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:27:16: # Command line: callpeak -t SRX1631834.bam -f BAM -g 12100000 -n SRX1631834.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1631834.05 # format = BAM # ChIP-seq file = ['SRX1631834.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 06:27:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:27:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:27:22: 1000000 INFO @ Wed, 28 Jun 2017 06:27:22: 1000000 INFO @ Wed, 28 Jun 2017 06:27:23: 1000000 INFO @ Wed, 28 Jun 2017 06:27:27: 2000000 INFO @ Wed, 28 Jun 2017 06:27:27: 2000000 INFO @ Wed, 28 Jun 2017 06:27:31: 2000000 INFO @ Wed, 28 Jun 2017 06:27:33: 3000000 INFO @ Wed, 28 Jun 2017 06:27:33: 3000000 INFO @ Wed, 28 Jun 2017 06:27:38: 3000000 INFO @ Wed, 28 Jun 2017 06:27:39: 4000000 INFO @ Wed, 28 Jun 2017 06:27:39: 4000000 INFO @ Wed, 28 Jun 2017 06:27:45: 5000000 INFO @ Wed, 28 Jun 2017 06:27:45: 5000000 INFO @ Wed, 28 Jun 2017 06:27:46: 4000000 INFO @ Wed, 28 Jun 2017 06:27:50: 6000000 INFO @ Wed, 28 Jun 2017 06:27:51: 6000000 INFO @ Wed, 28 Jun 2017 06:27:53: 5000000 INFO @ Wed, 28 Jun 2017 06:27:56: 7000000 INFO @ Wed, 28 Jun 2017 06:27:56: 7000000 INFO @ Wed, 28 Jun 2017 06:28:00: 6000000 INFO @ Wed, 28 Jun 2017 06:28:02: 8000000 INFO @ Wed, 28 Jun 2017 06:28:02: 8000000 INFO @ Wed, 28 Jun 2017 06:28:08: 7000000 INFO @ Wed, 28 Jun 2017 06:28:08: 9000000 INFO @ Wed, 28 Jun 2017 06:28:08: 9000000 INFO @ Wed, 28 Jun 2017 06:28:14: 10000000 INFO @ Wed, 28 Jun 2017 06:28:14: 10000000 INFO @ Wed, 28 Jun 2017 06:28:15: 8000000 INFO @ Wed, 28 Jun 2017 06:28:20: 11000000 INFO @ Wed, 28 Jun 2017 06:28:20: 11000000 INFO @ Wed, 28 Jun 2017 06:28:22: 9000000 INFO @ Wed, 28 Jun 2017 06:28:26: 12000000 INFO @ Wed, 28 Jun 2017 06:28:26: 12000000 INFO @ Wed, 28 Jun 2017 06:28:30: 10000000 INFO @ Wed, 28 Jun 2017 06:28:32: 13000000 INFO @ Wed, 28 Jun 2017 06:28:33: 13000000 INFO @ Wed, 28 Jun 2017 06:28:37: 11000000 INFO @ Wed, 28 Jun 2017 06:28:38: 14000000 INFO @ Wed, 28 Jun 2017 06:28:39: 14000000 INFO @ Wed, 28 Jun 2017 06:28:44: 15000000 INFO @ Wed, 28 Jun 2017 06:28:44: 12000000 INFO @ Wed, 28 Jun 2017 06:28:45: 15000000 INFO @ Wed, 28 Jun 2017 06:28:50: 16000000 INFO @ Wed, 28 Jun 2017 06:28:51: 16000000 INFO @ Wed, 28 Jun 2017 06:28:52: 13000000 INFO @ Wed, 28 Jun 2017 06:28:56: 17000000 INFO @ Wed, 28 Jun 2017 06:28:57: 17000000 INFO @ Wed, 28 Jun 2017 06:28:59: 14000000 INFO @ Wed, 28 Jun 2017 06:29:02: 18000000 INFO @ Wed, 28 Jun 2017 06:29:03: 18000000 INFO @ Wed, 28 Jun 2017 06:29:07: 15000000 INFO @ Wed, 28 Jun 2017 06:29:08: 19000000 INFO @ Wed, 28 Jun 2017 06:29:09: 19000000 INFO @ Wed, 28 Jun 2017 06:29:14: 20000000 INFO @ Wed, 28 Jun 2017 06:29:14: 16000000 INFO @ Wed, 28 Jun 2017 06:29:16: 20000000 INFO @ Wed, 28 Jun 2017 06:29:20: 21000000 INFO @ Wed, 28 Jun 2017 06:29:21: 17000000 INFO @ Wed, 28 Jun 2017 06:29:22: 21000000 INFO @ Wed, 28 Jun 2017 06:29:26: 22000000 INFO @ Wed, 28 Jun 2017 06:29:29: 18000000 INFO @ Wed, 28 Jun 2017 06:29:29: 22000000 INFO @ Wed, 28 Jun 2017 06:29:33: 23000000 INFO @ Wed, 28 Jun 2017 06:29:35: 23000000 INFO @ Wed, 28 Jun 2017 06:29:36: 19000000 INFO @ Wed, 28 Jun 2017 06:29:39: 24000000 INFO @ Wed, 28 Jun 2017 06:29:42: 24000000 INFO @ Wed, 28 Jun 2017 06:29:43: 20000000 INFO @ Wed, 28 Jun 2017 06:29:45: 25000000 INFO @ Wed, 28 Jun 2017 06:29:48: 25000000 INFO @ Wed, 28 Jun 2017 06:29:50: 21000000 INFO @ Wed, 28 Jun 2017 06:29:51: 26000000 INFO @ Wed, 28 Jun 2017 06:29:55: 26000000 INFO @ Wed, 28 Jun 2017 06:29:56: 22000000 INFO @ Wed, 28 Jun 2017 06:29:56: 27000000 INFO @ Wed, 28 Jun 2017 06:30:01: 27000000 INFO @ Wed, 28 Jun 2017 06:30:02: 23000000 INFO @ Wed, 28 Jun 2017 06:30:02: 28000000 INFO @ Wed, 28 Jun 2017 06:30:07: 29000000 INFO @ Wed, 28 Jun 2017 06:30:08: 28000000 INFO @ Wed, 28 Jun 2017 06:30:08: 24000000 INFO @ Wed, 28 Jun 2017 06:30:12: 30000000 INFO @ Wed, 28 Jun 2017 06:30:14: 25000000 INFO @ Wed, 28 Jun 2017 06:30:16: 29000000 INFO @ Wed, 28 Jun 2017 06:30:18: 31000000 INFO @ Wed, 28 Jun 2017 06:30:21: 26000000 INFO @ Wed, 28 Jun 2017 06:30:24: 30000000 INFO @ Wed, 28 Jun 2017 06:30:25: 32000000 INFO @ Wed, 28 Jun 2017 06:30:29: 27000000 INFO @ Wed, 28 Jun 2017 06:30:31: 33000000 INFO @ Wed, 28 Jun 2017 06:30:33: 31000000 INFO @ Wed, 28 Jun 2017 06:30:36: 28000000 INFO @ Wed, 28 Jun 2017 06:30:37: 34000000 INFO @ Wed, 28 Jun 2017 06:30:42: 32000000 INFO @ Wed, 28 Jun 2017 06:30:43: 29000000 INFO @ Wed, 28 Jun 2017 06:30:44: 35000000 INFO @ Wed, 28 Jun 2017 06:30:50: 36000000 INFO @ Wed, 28 Jun 2017 06:30:50: 30000000 INFO @ Wed, 28 Jun 2017 06:30:51: 33000000 INFO @ Wed, 28 Jun 2017 06:30:56: 37000000 INFO @ Wed, 28 Jun 2017 06:30:58: 31000000 INFO @ Wed, 28 Jun 2017 06:31:00: 34000000 INFO @ Wed, 28 Jun 2017 06:31:02: 38000000 INFO @ Wed, 28 Jun 2017 06:31:05: 32000000 INFO @ Wed, 28 Jun 2017 06:31:09: 35000000 INFO @ Wed, 28 Jun 2017 06:31:09: 39000000 INFO @ Wed, 28 Jun 2017 06:31:12: 33000000 INFO @ Wed, 28 Jun 2017 06:31:15: 40000000 INFO @ Wed, 28 Jun 2017 06:31:17: 36000000 INFO @ Wed, 28 Jun 2017 06:31:20: 34000000 INFO @ Wed, 28 Jun 2017 06:31:21: 41000000 INFO @ Wed, 28 Jun 2017 06:31:26: 37000000 INFO @ Wed, 28 Jun 2017 06:31:27: 35000000 INFO @ Wed, 28 Jun 2017 06:31:27: 42000000 INFO @ Wed, 28 Jun 2017 06:31:34: 43000000 INFO @ Wed, 28 Jun 2017 06:31:34: 36000000 INFO @ Wed, 28 Jun 2017 06:31:34: 38000000 INFO @ Wed, 28 Jun 2017 06:31:40: 44000000 INFO @ Wed, 28 Jun 2017 06:31:41: 37000000 INFO @ Wed, 28 Jun 2017 06:31:43: 39000000 INFO @ Wed, 28 Jun 2017 06:31:46: 45000000 INFO @ Wed, 28 Jun 2017 06:31:49: 38000000 INFO @ Wed, 28 Jun 2017 06:31:51: 46000000 INFO @ Wed, 28 Jun 2017 06:31:51: 40000000 INFO @ Wed, 28 Jun 2017 06:31:55: 39000000 INFO @ Wed, 28 Jun 2017 06:31:57: 47000000 INFO @ Wed, 28 Jun 2017 06:31:58: 41000000 INFO @ Wed, 28 Jun 2017 06:32:02: 40000000 INFO @ Wed, 28 Jun 2017 06:32:02: 48000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 28 Jun 2017 06:32:06: 42000000 INFO @ Wed, 28 Jun 2017 06:32:07: 49000000 INFO @ Wed, 28 Jun 2017 06:32:08: 41000000 INFO @ Wed, 28 Jun 2017 06:32:13: 50000000 INFO @ Wed, 28 Jun 2017 06:32:13: 43000000 INFO @ Wed, 28 Jun 2017 06:32:14: 42000000 INFO @ Wed, 28 Jun 2017 06:32:15: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:32:15: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:32:15: #1 total tags in treatment: 24738685 INFO @ Wed, 28 Jun 2017 06:32:15: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:32:15: #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 06:32:15: #1 tags after filtering in treatment: 14104721 INFO @ Wed, 28 Jun 2017 06:32:15: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 28 Jun 2017 06:32:15: #1 finished! INFO @ Wed, 28 Jun 2017 06:32:15: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:32:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:32:16: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:32:16: 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 06:32:16: Process for pairing-model is terminated! cat: SRX1631834.10_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 `SRX1631834.10_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 `SRX1631834.10_*.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 `SRX1631834.10_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 06:32:21: 44000000 INFO @ Wed, 28 Jun 2017 06:32:21: 43000000 BigWig に変換しました。 INFO @ Wed, 28 Jun 2017 06:32:27: 44000000 INFO @ Wed, 28 Jun 2017 06:32:28: 45000000 INFO @ Wed, 28 Jun 2017 06:32:33: 45000000 INFO @ Wed, 28 Jun 2017 06:32:36: 46000000 INFO @ Wed, 28 Jun 2017 06:32:40: 46000000 INFO @ Wed, 28 Jun 2017 06:32:44: 47000000 INFO @ Wed, 28 Jun 2017 06:32:46: 47000000 INFO @ Wed, 28 Jun 2017 06:32:51: 48000000 INFO @ Wed, 28 Jun 2017 06:32:52: 48000000 INFO @ Wed, 28 Jun 2017 06:32:58: 49000000 INFO @ Wed, 28 Jun 2017 06:32:58: 49000000 INFO @ Wed, 28 Jun 2017 06:33:04: 50000000 INFO @ Wed, 28 Jun 2017 06:33:05: 50000000 INFO @ Wed, 28 Jun 2017 06:33:06: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:33:06: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:33:06: #1 total tags in treatment: 24738685 INFO @ Wed, 28 Jun 2017 06:33:06: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:33:06: #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 06:33:07: #1 tags after filtering in treatment: 14104721 INFO @ Wed, 28 Jun 2017 06:33:07: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 28 Jun 2017 06:33:07: #1 finished! INFO @ Wed, 28 Jun 2017 06:33:07: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:33:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:33:07: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:33:07: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:33:07: #1 total tags in treatment: 24738685 INFO @ Wed, 28 Jun 2017 06:33:07: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:33:07: #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 06:33:08: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:33:08: 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 06:33:08: Process for pairing-model is terminated! cat: SRX1631834.05_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 `SRX1631834.05_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 `SRX1631834.05_*.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 `SRX1631834.05_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 INFO @ Wed, 28 Jun 2017 06:33:08: #1 tags after filtering in treatment: 14104721 INFO @ Wed, 28 Jun 2017 06:33:08: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 28 Jun 2017 06:33:08: #1 finished! INFO @ Wed, 28 Jun 2017 06:33:08: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:33:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:33:09: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:33:09: 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 06:33:09: Process for pairing-model is terminated! cat: SRX1631834.20_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 `SRX1631834.20_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 `SRX1631834.20_*.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 `SRX1631834.20_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