Job ID = 10608961 sra ファイルのダウンロード中... Completed: 4309779K bytes transferred in 478 seconds (73742K bits/sec), in 1 file. 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 36124840 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2741961/SRR5453795.sra Written 36124840 spots total rm: cannot remove `[DSE]RX*': 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 `[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: 00:55:09 36124840 reads; of these: 36124840 (100.00%) were paired; of these: 5157014 (14.28%) aligned concordantly 0 times 26959476 (74.63%) aligned concordantly exactly 1 time 4008350 (11.10%) aligned concordantly >1 times ---- 5157014 pairs aligned concordantly 0 times; of these: 1511018 (29.30%) aligned discordantly 1 time ---- 3645996 pairs aligned 0 times concordantly or discordantly; of these: 7291992 mates make up the pairs; of these: 4916350 (67.42%) aligned 0 times 1490043 (20.43%) aligned exactly 1 time 885599 (12.14%) aligned >1 times 93.20% overall alignment rate Time searching: 00:55:09 Overall time: 00:55:09 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 28 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] 8346759 / 32306992 = 0.2584 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, 04 May 2018 00:18:34: # Command line: callpeak -t SRX2741961.bam -f BAM -g 12100000 -n SRX2741961.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2741961.05 # format = BAM # ChIP-seq file = ['SRX2741961.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, 04 May 2018 00:18:34: # Command line: callpeak -t SRX2741961.bam -f BAM -g 12100000 -n SRX2741961.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2741961.20 # format = BAM # ChIP-seq file = ['SRX2741961.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, 04 May 2018 00:18:34: # Command line: callpeak -t SRX2741961.bam -f BAM -g 12100000 -n SRX2741961.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2741961.10 # format = BAM # ChIP-seq file = ['SRX2741961.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, 04 May 2018 00:18:34: #1 read tag files... INFO @ Fri, 04 May 2018 00:18:34: #1 read tag files... INFO @ Fri, 04 May 2018 00:18:34: #1 read tag files... INFO @ Fri, 04 May 2018 00:18:34: #1 read treatment tags... INFO @ Fri, 04 May 2018 00:18:34: #1 read treatment tags... INFO @ Fri, 04 May 2018 00:18:34: #1 read treatment tags... INFO @ Fri, 04 May 2018 00:18:42: 1000000 INFO @ Fri, 04 May 2018 00:18:42: 1000000 INFO @ Fri, 04 May 2018 00:18:42: 1000000 INFO @ Fri, 04 May 2018 00:18:50: 2000000 INFO @ Fri, 04 May 2018 00:18:50: 2000000 INFO @ Fri, 04 May 2018 00:18:50: 2000000 INFO @ Fri, 04 May 2018 00:18:57: 3000000 INFO @ Fri, 04 May 2018 00:18:59: 3000000 INFO @ Fri, 04 May 2018 00:18:59: 3000000 INFO @ Fri, 04 May 2018 00:19:05: 4000000 INFO @ Fri, 04 May 2018 00:19:07: 4000000 INFO @ Fri, 04 May 2018 00:19:07: 4000000 INFO @ Fri, 04 May 2018 00:19:13: 5000000 INFO @ Fri, 04 May 2018 00:19:14: 5000000 INFO @ Fri, 04 May 2018 00:19:15: 5000000 INFO @ Fri, 04 May 2018 00:19:21: 6000000 INFO @ Fri, 04 May 2018 00:19:22: 6000000 INFO @ Fri, 04 May 2018 00:19:23: 6000000 INFO @ Fri, 04 May 2018 00:19:29: 7000000 INFO @ Fri, 04 May 2018 00:19:29: 7000000 INFO @ Fri, 04 May 2018 00:19:32: 7000000 INFO @ Fri, 04 May 2018 00:19:37: 8000000 INFO @ Fri, 04 May 2018 00:19:37: 8000000 INFO @ Fri, 04 May 2018 00:19:40: 8000000 INFO @ Fri, 04 May 2018 00:19:44: 9000000 INFO @ Fri, 04 May 2018 00:19:45: 9000000 INFO @ Fri, 04 May 2018 00:19:48: 9000000 INFO @ Fri, 04 May 2018 00:19:52: 10000000 INFO @ Fri, 04 May 2018 00:19:53: 10000000 INFO @ Fri, 04 May 2018 00:19:56: 10000000 INFO @ Fri, 04 May 2018 00:19:59: 11000000 INFO @ Fri, 04 May 2018 00:20:01: 11000000 INFO @ Fri, 04 May 2018 00:20:04: 11000000 INFO @ Fri, 04 May 2018 00:20:07: 12000000 INFO @ Fri, 04 May 2018 00:20:09: 12000000 INFO @ Fri, 04 May 2018 00:20:12: 12000000 INFO @ Fri, 04 May 2018 00:20:14: 13000000 INFO @ Fri, 04 May 2018 00:20:17: 13000000 INFO @ Fri, 04 May 2018 00:20:20: 13000000 INFO @ Fri, 04 May 2018 00:20:22: 14000000 INFO @ Fri, 04 May 2018 00:20:25: 14000000 INFO @ Fri, 04 May 2018 00:20:29: 14000000 INFO @ Fri, 04 May 2018 00:20:29: 15000000 INFO @ Fri, 04 May 2018 00:20:34: 15000000 INFO @ Fri, 04 May 2018 00:20:37: 16000000 INFO @ Fri, 04 May 2018 00:20:37: 15000000 INFO @ Fri, 04 May 2018 00:20:42: 16000000 INFO @ Fri, 04 May 2018 00:20:44: 17000000 INFO @ Fri, 04 May 2018 00:20:46: 16000000 INFO @ Fri, 04 May 2018 00:20:50: 17000000 INFO @ Fri, 04 May 2018 00:20:51: 18000000 INFO @ Fri, 04 May 2018 00:20:54: 17000000 INFO @ Fri, 04 May 2018 00:20:59: 18000000 INFO @ Fri, 04 May 2018 00:20:59: 19000000 INFO @ Fri, 04 May 2018 00:21:03: 18000000 INFO @ Fri, 04 May 2018 00:21:06: 20000000 INFO @ Fri, 04 May 2018 00:21:07: 19000000 INFO @ Fri, 04 May 2018 00:21:11: 19000000 INFO @ Fri, 04 May 2018 00:21:14: 21000000 INFO @ Fri, 04 May 2018 00:21:15: 20000000 INFO @ Fri, 04 May 2018 00:21:19: 20000000 INFO @ Fri, 04 May 2018 00:21:21: 22000000 INFO @ Fri, 04 May 2018 00:21:23: 21000000 INFO @ Fri, 04 May 2018 00:21:27: 21000000 INFO @ Fri, 04 May 2018 00:21:29: 23000000 INFO @ Fri, 04 May 2018 00:21:31: 22000000 INFO @ Fri, 04 May 2018 00:21:36: 22000000 INFO @ Fri, 04 May 2018 00:21:36: 24000000 INFO @ Fri, 04 May 2018 00:21:39: 23000000 INFO @ Fri, 04 May 2018 00:21:44: 25000000 INFO @ Fri, 04 May 2018 00:21:44: 23000000 INFO @ Fri, 04 May 2018 00:21:47: 24000000 INFO @ Fri, 04 May 2018 00:21:51: 26000000 INFO @ Fri, 04 May 2018 00:21:52: 24000000 INFO @ Fri, 04 May 2018 00:21:55: 25000000 INFO @ Fri, 04 May 2018 00:21:58: 27000000 INFO @ Fri, 04 May 2018 00:22:00: 25000000 INFO @ Fri, 04 May 2018 00:22:03: 26000000 INFO @ Fri, 04 May 2018 00:22:06: 28000000 INFO @ Fri, 04 May 2018 00:22:08: 26000000 INFO @ Fri, 04 May 2018 00:22:11: 27000000 INFO @ Fri, 04 May 2018 00:22:13: 29000000 INFO @ Fri, 04 May 2018 00:22:16: 27000000 INFO @ Fri, 04 May 2018 00:22:19: 28000000 INFO @ Fri, 04 May 2018 00:22:21: 30000000 INFO @ Fri, 04 May 2018 00:22:24: 28000000 INFO @ Fri, 04 May 2018 00:22:27: 29000000 INFO @ Fri, 04 May 2018 00:22:28: 31000000 INFO @ Fri, 04 May 2018 00:22:33: 29000000 INFO @ Fri, 04 May 2018 00:22:35: 30000000 INFO @ Fri, 04 May 2018 00:22:36: 32000000 INFO @ Fri, 04 May 2018 00:22:41: 30000000 INFO @ Fri, 04 May 2018 00:22:43: 33000000 INFO @ Fri, 04 May 2018 00:22:43: 31000000 INFO @ Fri, 04 May 2018 00:22:50: 31000000 INFO @ Fri, 04 May 2018 00:22:50: 34000000 INFO @ Fri, 04 May 2018 00:22:52: 32000000 INFO @ Fri, 04 May 2018 00:22:58: 35000000 INFO @ Fri, 04 May 2018 00:22:58: 32000000 INFO @ Fri, 04 May 2018 00:23:00: 33000000 INFO @ Fri, 04 May 2018 00:23:05: 36000000 INFO @ Fri, 04 May 2018 00:23:07: 33000000 INFO @ Fri, 04 May 2018 00:23:08: 34000000 INFO @ Fri, 04 May 2018 00:23:13: 37000000 INFO @ Fri, 04 May 2018 00:23:15: 34000000 INFO @ Fri, 04 May 2018 00:23:17: 35000000 INFO @ Fri, 04 May 2018 00:23:20: 38000000 INFO @ Fri, 04 May 2018 00:23:23: 35000000 INFO @ Fri, 04 May 2018 00:23:25: 36000000 INFO @ Fri, 04 May 2018 00:23:28: 39000000 INFO @ Fri, 04 May 2018 00:23:32: 36000000 INFO @ Fri, 04 May 2018 00:23:33: 37000000 INFO @ Fri, 04 May 2018 00:23:35: 40000000 INFO @ Fri, 04 May 2018 00:23:40: 37000000 INFO @ Fri, 04 May 2018 00:23:41: 38000000 INFO @ Fri, 04 May 2018 00:23:42: 41000000 INFO @ Fri, 04 May 2018 00:23:48: 38000000 INFO @ Fri, 04 May 2018 00:23:50: 39000000 INFO @ Fri, 04 May 2018 00:23:50: 42000000 INFO @ Fri, 04 May 2018 00:23:57: 39000000 INFO @ Fri, 04 May 2018 00:23:58: 43000000 INFO @ Fri, 04 May 2018 00:23:58: 40000000 INFO @ Fri, 04 May 2018 00:24:05: 40000000 INFO @ Fri, 04 May 2018 00:24:05: 44000000 INFO @ Fri, 04 May 2018 00:24:07: 41000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 04 May 2018 00:24:13: 45000000 INFO @ Fri, 04 May 2018 00:24:14: 41000000 INFO @ Fri, 04 May 2018 00:24:15: 42000000 INFO @ Fri, 04 May 2018 00:24:20: 46000000 INFO @ Fri, 04 May 2018 00:24:22: 42000000 INFO @ Fri, 04 May 2018 00:24:23: 43000000 INFO @ Fri, 04 May 2018 00:24:28: 47000000 INFO @ Fri, 04 May 2018 00:24:30: 43000000 INFO @ Fri, 04 May 2018 00:24:31: 44000000 BigWig に変換しました。 INFO @ Fri, 04 May 2018 00:24:35: 48000000 INFO @ Fri, 04 May 2018 00:24:39: 44000000 INFO @ Fri, 04 May 2018 00:24:39: 45000000 INFO @ Fri, 04 May 2018 00:24:43: 49000000 INFO @ Fri, 04 May 2018 00:24:47: 45000000 INFO @ Fri, 04 May 2018 00:24:47: 46000000 INFO @ Fri, 04 May 2018 00:24:51: 50000000 INFO @ Fri, 04 May 2018 00:24:56: #1 tag size is determined as 100 bps INFO @ Fri, 04 May 2018 00:24:56: #1 tag size = 100 INFO @ Fri, 04 May 2018 00:24:56: #1 total tags in treatment: 22839008 INFO @ Fri, 04 May 2018 00:24:56: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 00:24:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 04 May 2018 00:24:56: 47000000 INFO @ Fri, 04 May 2018 00:24:56: 46000000 INFO @ Fri, 04 May 2018 00:24:56: #1 tags after filtering in treatment: 11437198 INFO @ Fri, 04 May 2018 00:24:56: #1 Redundant rate of treatment: 0.50 INFO @ Fri, 04 May 2018 00:24:56: #1 finished! INFO @ Fri, 04 May 2018 00:24:56: #2 Build Peak Model... INFO @ Fri, 04 May 2018 00:24:56: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 00:24:57: #2 number of paired peaks: 0 WARNING @ Fri, 04 May 2018 00:24:57: 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 @ Fri, 04 May 2018 00:24:57: Process for pairing-model is terminated! cat: SRX2741961.20_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 `SRX2741961.20_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 `SRX2741961.20_*.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 `SRX2741961.20_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 @ Fri, 04 May 2018 00:25:04: 48000000 INFO @ Fri, 04 May 2018 00:25:04: 47000000 INFO @ Fri, 04 May 2018 00:25:12: 49000000 INFO @ Fri, 04 May 2018 00:25:12: 48000000 INFO @ Fri, 04 May 2018 00:25:20: 50000000 INFO @ Fri, 04 May 2018 00:25:20: 49000000 INFO @ Fri, 04 May 2018 00:25:25: #1 tag size is determined as 100 bps INFO @ Fri, 04 May 2018 00:25:25: #1 tag size = 100 INFO @ Fri, 04 May 2018 00:25:25: #1 total tags in treatment: 22839008 INFO @ Fri, 04 May 2018 00:25:25: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 00:25:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 04 May 2018 00:25:25: #1 tags after filtering in treatment: 11437198 INFO @ Fri, 04 May 2018 00:25:25: #1 Redundant rate of treatment: 0.50 INFO @ Fri, 04 May 2018 00:25:25: #1 finished! INFO @ Fri, 04 May 2018 00:25:25: #2 Build Peak Model... INFO @ Fri, 04 May 2018 00:25:25: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 00:25:26: #2 number of paired peaks: 0 WARNING @ Fri, 04 May 2018 00:25:26: 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, 04 May 2018 00:25:26: Process for pairing-model is terminated! cat: SRX2741961.10_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 `SRX2741961.10_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 `SRX2741961.10_*.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 `SRX2741961.10_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 @ Fri, 04 May 2018 00:25:28: 50000000 INFO @ Fri, 04 May 2018 00:25:33: #1 tag size is determined as 100 bps INFO @ Fri, 04 May 2018 00:25:33: #1 tag size = 100 INFO @ Fri, 04 May 2018 00:25:33: #1 total tags in treatment: 22839008 INFO @ Fri, 04 May 2018 00:25:33: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 00:25:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 04 May 2018 00:25:34: #1 tags after filtering in treatment: 11437198 INFO @ Fri, 04 May 2018 00:25:34: #1 Redundant rate of treatment: 0.50 INFO @ Fri, 04 May 2018 00:25:34: #1 finished! INFO @ Fri, 04 May 2018 00:25:34: #2 Build Peak Model... INFO @ Fri, 04 May 2018 00:25:34: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 00:25:34: #2 number of paired peaks: 0 WARNING @ Fri, 04 May 2018 00:25:34: 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, 04 May 2018 00:25:34: Process for pairing-model is terminated! cat: SRX2741961.05_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 `SRX2741961.05_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 `SRX2741961.05_*.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 `SRX2741961.05_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