Job ID = 10608962 sra ファイルのダウンロード中... Completed: 3594153K bytes transferred in 188 seconds (155841K 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 30121519 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2741962/SRR5453796.sra Written 30121519 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: 00:50:52 30121519 reads; of these: 30121519 (100.00%) were paired; of these: 4245649 (14.10%) aligned concordantly 0 times 22620480 (75.10%) aligned concordantly exactly 1 time 3255390 (10.81%) aligned concordantly >1 times ---- 4245649 pairs aligned concordantly 0 times; of these: 1348614 (31.76%) aligned discordantly 1 time ---- 2897035 pairs aligned 0 times concordantly or discordantly; of these: 5794070 mates make up the pairs; of these: 3532304 (60.96%) aligned 0 times 1450106 (25.03%) aligned exactly 1 time 811660 (14.01%) aligned >1 times 94.14% overall alignment rate Time searching: 00:50:52 Overall time: 00:50:52 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] 6169440 / 27071681 = 0.2279 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 00:05:12: # Command line: callpeak -t SRX2741962.bam -f BAM -g 12100000 -n SRX2741962.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2741962.20 # format = BAM # ChIP-seq file = ['SRX2741962.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 00:05:12: # Command line: callpeak -t SRX2741962.bam -f BAM -g 12100000 -n SRX2741962.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2741962.05 # format = BAM # ChIP-seq file = ['SRX2741962.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 00:05:12: # Command line: callpeak -t SRX2741962.bam -f BAM -g 12100000 -n SRX2741962.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2741962.10 # format = BAM # ChIP-seq file = ['SRX2741962.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 00:05:12: #1 read tag files... INFO @ Fri, 04 May 2018 00:05:12: #1 read tag files... INFO @ Fri, 04 May 2018 00:05:12: #1 read tag files... INFO @ Fri, 04 May 2018 00:05:12: #1 read treatment tags... INFO @ Fri, 04 May 2018 00:05:12: #1 read treatment tags... INFO @ Fri, 04 May 2018 00:05:12: #1 read treatment tags... INFO @ Fri, 04 May 2018 00:05:19: 1000000 INFO @ Fri, 04 May 2018 00:05:19: 1000000 INFO @ Fri, 04 May 2018 00:05:19: 1000000 INFO @ Fri, 04 May 2018 00:05:26: 2000000 INFO @ Fri, 04 May 2018 00:05:26: 2000000 INFO @ Fri, 04 May 2018 00:05:26: 2000000 INFO @ Fri, 04 May 2018 00:05:32: 3000000 INFO @ Fri, 04 May 2018 00:05:32: 3000000 INFO @ Fri, 04 May 2018 00:05:33: 3000000 INFO @ Fri, 04 May 2018 00:05:39: 4000000 INFO @ Fri, 04 May 2018 00:05:40: 4000000 INFO @ Fri, 04 May 2018 00:05:40: 4000000 INFO @ Fri, 04 May 2018 00:05:46: 5000000 INFO @ Fri, 04 May 2018 00:05:46: 5000000 INFO @ Fri, 04 May 2018 00:05:46: 5000000 INFO @ Fri, 04 May 2018 00:05:53: 6000000 INFO @ Fri, 04 May 2018 00:05:53: 6000000 INFO @ Fri, 04 May 2018 00:05:53: 6000000 INFO @ Fri, 04 May 2018 00:06:00: 7000000 INFO @ Fri, 04 May 2018 00:06:00: 7000000 INFO @ Fri, 04 May 2018 00:06:01: 7000000 INFO @ Fri, 04 May 2018 00:06:07: 8000000 INFO @ Fri, 04 May 2018 00:06:07: 8000000 INFO @ Fri, 04 May 2018 00:06:08: 8000000 INFO @ Fri, 04 May 2018 00:06:13: 9000000 INFO @ Fri, 04 May 2018 00:06:14: 9000000 INFO @ Fri, 04 May 2018 00:06:15: 9000000 INFO @ Fri, 04 May 2018 00:06:20: 10000000 INFO @ Fri, 04 May 2018 00:06:21: 10000000 INFO @ Fri, 04 May 2018 00:06:22: 10000000 INFO @ Fri, 04 May 2018 00:06:27: 11000000 INFO @ Fri, 04 May 2018 00:06:28: 11000000 INFO @ Fri, 04 May 2018 00:06:29: 11000000 INFO @ Fri, 04 May 2018 00:06:33: 12000000 INFO @ Fri, 04 May 2018 00:06:35: 12000000 INFO @ Fri, 04 May 2018 00:06:36: 12000000 INFO @ Fri, 04 May 2018 00:06:40: 13000000 INFO @ Fri, 04 May 2018 00:06:42: 13000000 INFO @ Fri, 04 May 2018 00:06:43: 13000000 INFO @ Fri, 04 May 2018 00:06:46: 14000000 INFO @ Fri, 04 May 2018 00:06:49: 14000000 INFO @ Fri, 04 May 2018 00:06:50: 14000000 INFO @ Fri, 04 May 2018 00:06:53: 15000000 INFO @ Fri, 04 May 2018 00:06:56: 15000000 INFO @ Fri, 04 May 2018 00:06:57: 15000000 INFO @ Fri, 04 May 2018 00:07:00: 16000000 INFO @ Fri, 04 May 2018 00:07:03: 16000000 INFO @ Fri, 04 May 2018 00:07:04: 16000000 INFO @ Fri, 04 May 2018 00:07:06: 17000000 INFO @ Fri, 04 May 2018 00:07:10: 17000000 INFO @ Fri, 04 May 2018 00:07:11: 17000000 INFO @ Fri, 04 May 2018 00:07:13: 18000000 INFO @ Fri, 04 May 2018 00:07:17: 18000000 INFO @ Fri, 04 May 2018 00:07:18: 18000000 INFO @ Fri, 04 May 2018 00:07:20: 19000000 INFO @ Fri, 04 May 2018 00:07:24: 19000000 INFO @ Fri, 04 May 2018 00:07:25: 19000000 INFO @ Fri, 04 May 2018 00:07:26: 20000000 INFO @ Fri, 04 May 2018 00:07:31: 20000000 INFO @ Fri, 04 May 2018 00:07:32: 20000000 INFO @ Fri, 04 May 2018 00:07:33: 21000000 INFO @ Fri, 04 May 2018 00:07:38: 21000000 INFO @ Fri, 04 May 2018 00:07:40: 21000000 INFO @ Fri, 04 May 2018 00:07:40: 22000000 INFO @ Fri, 04 May 2018 00:07:45: 22000000 INFO @ Fri, 04 May 2018 00:07:46: 22000000 INFO @ Fri, 04 May 2018 00:07:47: 23000000 INFO @ Fri, 04 May 2018 00:07:52: 23000000 INFO @ Fri, 04 May 2018 00:07:53: 23000000 INFO @ Fri, 04 May 2018 00:07:54: 24000000 INFO @ Fri, 04 May 2018 00:07:59: 24000000 INFO @ Fri, 04 May 2018 00:08:00: 24000000 INFO @ Fri, 04 May 2018 00:08:00: 25000000 INFO @ Fri, 04 May 2018 00:08:06: 25000000 INFO @ Fri, 04 May 2018 00:08:07: 25000000 INFO @ Fri, 04 May 2018 00:08:07: 26000000 INFO @ Fri, 04 May 2018 00:08:12: 26000000 INFO @ Fri, 04 May 2018 00:08:14: 26000000 INFO @ Fri, 04 May 2018 00:08:14: 27000000 INFO @ Fri, 04 May 2018 00:08:19: 27000000 INFO @ Fri, 04 May 2018 00:08:21: 27000000 INFO @ Fri, 04 May 2018 00:08:21: 28000000 INFO @ Fri, 04 May 2018 00:08:26: 28000000 INFO @ Fri, 04 May 2018 00:08:28: 28000000 INFO @ Fri, 04 May 2018 00:08:28: 29000000 INFO @ Fri, 04 May 2018 00:08:33: 29000000 INFO @ Fri, 04 May 2018 00:08:35: 29000000 INFO @ Fri, 04 May 2018 00:08:35: 30000000 INFO @ Fri, 04 May 2018 00:08:40: 30000000 INFO @ Fri, 04 May 2018 00:08:41: 30000000 INFO @ Fri, 04 May 2018 00:08:42: 31000000 INFO @ Fri, 04 May 2018 00:08:46: 31000000 INFO @ Fri, 04 May 2018 00:08:48: 31000000 INFO @ Fri, 04 May 2018 00:08:49: 32000000 INFO @ Fri, 04 May 2018 00:08:53: 32000000 INFO @ Fri, 04 May 2018 00:08:55: 32000000 INFO @ Fri, 04 May 2018 00:08:56: 33000000 INFO @ Fri, 04 May 2018 00:09:00: 33000000 INFO @ Fri, 04 May 2018 00:09:02: 33000000 INFO @ Fri, 04 May 2018 00:09:03: 34000000 INFO @ Fri, 04 May 2018 00:09:07: 34000000 INFO @ Fri, 04 May 2018 00:09:09: 34000000 INFO @ Fri, 04 May 2018 00:09:10: 35000000 INFO @ Fri, 04 May 2018 00:09:14: 35000000 INFO @ Fri, 04 May 2018 00:09:15: 35000000 INFO @ Fri, 04 May 2018 00:09:17: 36000000 INFO @ Fri, 04 May 2018 00:09:21: 36000000 INFO @ Fri, 04 May 2018 00:09:22: 36000000 INFO @ Fri, 04 May 2018 00:09:24: 37000000 INFO @ Fri, 04 May 2018 00:09:28: 37000000 INFO @ Fri, 04 May 2018 00:09:29: 37000000 INFO @ Fri, 04 May 2018 00:09:31: 38000000 INFO @ Fri, 04 May 2018 00:09:35: 38000000 INFO @ Fri, 04 May 2018 00:09:36: 38000000 INFO @ Fri, 04 May 2018 00:09:38: 39000000 INFO @ Fri, 04 May 2018 00:09:41: 39000000 INFO @ Fri, 04 May 2018 00:09:43: 39000000 INFO @ Fri, 04 May 2018 00:09:45: 40000000 INFO @ Fri, 04 May 2018 00:09:48: 40000000 INFO @ Fri, 04 May 2018 00:09:50: 40000000 INFO @ Fri, 04 May 2018 00:09:52: 41000000 INFO @ Fri, 04 May 2018 00:09:55: 41000000 INFO @ Fri, 04 May 2018 00:09:57: 41000000 INFO @ Fri, 04 May 2018 00:09:59: 42000000 INFO @ Fri, 04 May 2018 00:10:02: 42000000 INFO @ Fri, 04 May 2018 00:10:04: 42000000 INFO @ Fri, 04 May 2018 00:10:06: 43000000 INFO @ Fri, 04 May 2018 00:10:09: 43000000 INFO @ Fri, 04 May 2018 00:10:11: 43000000 INFO @ Fri, 04 May 2018 00:10:13: 44000000 INFO @ Fri, 04 May 2018 00:10:15: 44000000 INFO @ Fri, 04 May 2018 00:10:16: #1 tag size is determined as 100 bps INFO @ Fri, 04 May 2018 00:10:16: #1 tag size = 100 INFO @ Fri, 04 May 2018 00:10:16: #1 total tags in treatment: 19861285 INFO @ Fri, 04 May 2018 00:10:16: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 00:10:16: #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 00:10:16: #1 tags after filtering in treatment: 10217170 INFO @ Fri, 04 May 2018 00:10:16: #1 Redundant rate of treatment: 0.49 INFO @ Fri, 04 May 2018 00:10:16: #1 finished! INFO @ Fri, 04 May 2018 00:10:16: #2 Build Peak Model... INFO @ Fri, 04 May 2018 00:10:16: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 00:10:17: #2 number of paired peaks: 0 WARNING @ Fri, 04 May 2018 00:10:17: 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 00:10:17: Process for pairing-model is terminated! cat: SRX2741962.05_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 `SRX2741962.05_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 `SRX2741962.05_*.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 `SRX2741962.05_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 @ Fri, 04 May 2018 00:10:17: 44000000 INFO @ Fri, 04 May 2018 00:10:18: #1 tag size is determined as 100 bps INFO @ Fri, 04 May 2018 00:10:18: #1 tag size = 100 INFO @ Fri, 04 May 2018 00:10:18: #1 total tags in treatment: 19861285 INFO @ Fri, 04 May 2018 00:10:18: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 00:10:18: #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 00:10:18: #1 tags after filtering in treatment: 10217170 INFO @ Fri, 04 May 2018 00:10:18: #1 Redundant rate of treatment: 0.49 INFO @ Fri, 04 May 2018 00:10:18: #1 finished! INFO @ Fri, 04 May 2018 00:10:18: #2 Build Peak Model... INFO @ Fri, 04 May 2018 00:10:18: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 00:10:19: #2 number of paired peaks: 0 WARNING @ Fri, 04 May 2018 00:10:19: 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 00:10:19: Process for pairing-model is terminated! cat: SRX2741962.20_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 `SRX2741962.20_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 `SRX2741962.20_*.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 `SRX2741962.20_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 00:10:20: #1 tag size is determined as 100 bps INFO @ Fri, 04 May 2018 00:10:20: #1 tag size = 100 INFO @ Fri, 04 May 2018 00:10:20: #1 total tags in treatment: 19861285 INFO @ Fri, 04 May 2018 00:10:20: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 00:10:20: #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 00:10:21: #1 tags after filtering in treatment: 10217170 INFO @ Fri, 04 May 2018 00:10:21: #1 Redundant rate of treatment: 0.49 INFO @ Fri, 04 May 2018 00:10:21: #1 finished! INFO @ Fri, 04 May 2018 00:10:21: #2 Build Peak Model... INFO @ Fri, 04 May 2018 00:10:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 00:10:21: #2 number of paired peaks: 0 WARNING @ Fri, 04 May 2018 00:10:21: 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 00:10:21: Process for pairing-model is terminated! cat: SRX2741962.10_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 `SRX2741962.10_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 `SRX2741962.10_*.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 `SRX2741962.10_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。