Job ID = 9158203 sra ファイルのダウンロード中... Completed: 1045535K bytes transferred in 11 seconds (742878K 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: SINGLE fastq に変換中... Written 39881305 spots for /home/okishinya/chipatlas/results/dm3/SRX110787/SRR388369.sra Written 39881305 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: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:13:43 39881305 reads; of these: 39881305 (100.00%) were unpaired; of these: 1347132 (3.38%) aligned 0 times 29122207 (73.02%) aligned exactly 1 time 9411966 (23.60%) aligned >1 times 96.62% overall alignment rate Time searching: 00:13:44 Overall time: 00:13:44 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 12 files... [bam_rmdupse_core] 4270694 / 38534173 = 0.1108 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 @ Tue, 27 Jun 2017 16:02:49: # Command line: callpeak -t SRX110787.bam -f BAM -g dm -n SRX110787.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX110787.20 # format = BAM # ChIP-seq file = ['SRX110787.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 27 Jun 2017 16:02:49: #1 read tag files... INFO @ Tue, 27 Jun 2017 16:02:49: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 16:02:49: # Command line: callpeak -t SRX110787.bam -f BAM -g dm -n SRX110787.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX110787.10 # format = BAM # ChIP-seq file = ['SRX110787.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 27 Jun 2017 16:02:49: #1 read tag files... INFO @ Tue, 27 Jun 2017 16:02:49: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 16:02:49: # Command line: callpeak -t SRX110787.bam -f BAM -g dm -n SRX110787.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX110787.05 # format = BAM # ChIP-seq file = ['SRX110787.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 27 Jun 2017 16:02:49: #1 read tag files... INFO @ Tue, 27 Jun 2017 16:02:49: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 16:02:57: 1000000 INFO @ Tue, 27 Jun 2017 16:02:58: 1000000 INFO @ Tue, 27 Jun 2017 16:02:58: 1000000 INFO @ Tue, 27 Jun 2017 16:03:05: 2000000 INFO @ Tue, 27 Jun 2017 16:03:07: 2000000 INFO @ Tue, 27 Jun 2017 16:03:07: 2000000 INFO @ Tue, 27 Jun 2017 16:03:13: 3000000 INFO @ Tue, 27 Jun 2017 16:03:16: 3000000 INFO @ Tue, 27 Jun 2017 16:03:16: 3000000 INFO @ Tue, 27 Jun 2017 16:03:21: 4000000 INFO @ Tue, 27 Jun 2017 16:03:26: 4000000 INFO @ Tue, 27 Jun 2017 16:03:26: 4000000 INFO @ Tue, 27 Jun 2017 16:03:29: 5000000 INFO @ Tue, 27 Jun 2017 16:03:35: 5000000 INFO @ Tue, 27 Jun 2017 16:03:35: 5000000 INFO @ Tue, 27 Jun 2017 16:03:37: 6000000 INFO @ Tue, 27 Jun 2017 16:03:44: 6000000 INFO @ Tue, 27 Jun 2017 16:03:44: 6000000 INFO @ Tue, 27 Jun 2017 16:03:46: 7000000 INFO @ Tue, 27 Jun 2017 16:03:54: 7000000 INFO @ Tue, 27 Jun 2017 16:03:54: 7000000 INFO @ Tue, 27 Jun 2017 16:03:54: 8000000 INFO @ Tue, 27 Jun 2017 16:04:02: 9000000 INFO @ Tue, 27 Jun 2017 16:04:03: 8000000 INFO @ Tue, 27 Jun 2017 16:04:03: 8000000 INFO @ Tue, 27 Jun 2017 16:04:10: 10000000 INFO @ Tue, 27 Jun 2017 16:04:12: 9000000 INFO @ Tue, 27 Jun 2017 16:04:12: 9000000 INFO @ Tue, 27 Jun 2017 16:04:18: 11000000 INFO @ Tue, 27 Jun 2017 16:04:22: 10000000 INFO @ Tue, 27 Jun 2017 16:04:22: 10000000 INFO @ Tue, 27 Jun 2017 16:04:26: 12000000 INFO @ Tue, 27 Jun 2017 16:04:31: 11000000 INFO @ Tue, 27 Jun 2017 16:04:31: 11000000 INFO @ Tue, 27 Jun 2017 16:04:35: 13000000 INFO @ Tue, 27 Jun 2017 16:04:40: 12000000 INFO @ Tue, 27 Jun 2017 16:04:40: 12000000 INFO @ Tue, 27 Jun 2017 16:04:43: 14000000 INFO @ Tue, 27 Jun 2017 16:04:49: 13000000 INFO @ Tue, 27 Jun 2017 16:04:49: 13000000 INFO @ Tue, 27 Jun 2017 16:04:51: 15000000 INFO @ Tue, 27 Jun 2017 16:04:59: 14000000 INFO @ Tue, 27 Jun 2017 16:04:59: 14000000 INFO @ Tue, 27 Jun 2017 16:04:59: 16000000 INFO @ Tue, 27 Jun 2017 16:05:06: 17000000 INFO @ Tue, 27 Jun 2017 16:05:08: 15000000 INFO @ Tue, 27 Jun 2017 16:05:08: 15000000 INFO @ Tue, 27 Jun 2017 16:05:14: 18000000 INFO @ Tue, 27 Jun 2017 16:05:17: 16000000 INFO @ Tue, 27 Jun 2017 16:05:17: 16000000 INFO @ Tue, 27 Jun 2017 16:05:22: 19000000 INFO @ Tue, 27 Jun 2017 16:05:26: 17000000 INFO @ Tue, 27 Jun 2017 16:05:26: 17000000 INFO @ Tue, 27 Jun 2017 16:05:29: 20000000 INFO @ Tue, 27 Jun 2017 16:05:35: 18000000 INFO @ Tue, 27 Jun 2017 16:05:35: 18000000 INFO @ Tue, 27 Jun 2017 16:05:37: 21000000 INFO @ Tue, 27 Jun 2017 16:05:44: 19000000 INFO @ Tue, 27 Jun 2017 16:05:44: 19000000 INFO @ Tue, 27 Jun 2017 16:05:45: 22000000 INFO @ Tue, 27 Jun 2017 16:05:53: 20000000 INFO @ Tue, 27 Jun 2017 16:05:53: 20000000 INFO @ Tue, 27 Jun 2017 16:05:53: 23000000 INFO @ Tue, 27 Jun 2017 16:06:00: 24000000 INFO @ Tue, 27 Jun 2017 16:06:01: 21000000 INFO @ Tue, 27 Jun 2017 16:06:02: 21000000 INFO @ Tue, 27 Jun 2017 16:06:08: 25000000 INFO @ Tue, 27 Jun 2017 16:06:10: 22000000 INFO @ Tue, 27 Jun 2017 16:06:10: 22000000 INFO @ Tue, 27 Jun 2017 16:06:16: 26000000 INFO @ Tue, 27 Jun 2017 16:06:19: 23000000 INFO @ Tue, 27 Jun 2017 16:06:19: 23000000 INFO @ Tue, 27 Jun 2017 16:06:24: 27000000 INFO @ Tue, 27 Jun 2017 16:06:28: 24000000 INFO @ Tue, 27 Jun 2017 16:06:28: 24000000 INFO @ Tue, 27 Jun 2017 16:06:31: 28000000 INFO @ Tue, 27 Jun 2017 16:06:37: 25000000 INFO @ Tue, 27 Jun 2017 16:06:37: 25000000 INFO @ Tue, 27 Jun 2017 16:06:39: 29000000 INFO @ Tue, 27 Jun 2017 16:06:46: 26000000 INFO @ Tue, 27 Jun 2017 16:06:46: 26000000 INFO @ Tue, 27 Jun 2017 16:06:47: 30000000 INFO @ Tue, 27 Jun 2017 16:06:55: 31000000 INFO @ Tue, 27 Jun 2017 16:06:55: 27000000 INFO @ Tue, 27 Jun 2017 16:06:55: 27000000 INFO @ Tue, 27 Jun 2017 16:07:03: 32000000 INFO @ Tue, 27 Jun 2017 16:07:04: 28000000 INFO @ Tue, 27 Jun 2017 16:07:04: 28000000 INFO @ Tue, 27 Jun 2017 16:07:10: 33000000 INFO @ Tue, 27 Jun 2017 16:07:13: 29000000 INFO @ Tue, 27 Jun 2017 16:07:13: 29000000 INFO @ Tue, 27 Jun 2017 16:07:18: 34000000 INFO @ Tue, 27 Jun 2017 16:07:20: #1 tag size is determined as 40 bps INFO @ Tue, 27 Jun 2017 16:07:20: #1 tag size = 40 INFO @ Tue, 27 Jun 2017 16:07:20: #1 total tags in treatment: 34263479 INFO @ Tue, 27 Jun 2017 16:07:20: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 16:07:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 16:07:21: #1 tags after filtering in treatment: 34263479 INFO @ Tue, 27 Jun 2017 16:07:21: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 16:07:21: #1 finished! INFO @ Tue, 27 Jun 2017 16:07:21: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 16:07:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 16:07:22: 30000000 INFO @ Tue, 27 Jun 2017 16:07:22: 30000000 INFO @ Tue, 27 Jun 2017 16:07:24: #2 number of paired peaks: 4 WARNING @ Tue, 27 Jun 2017 16:07:24: Too few paired peaks (4) 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 @ Tue, 27 Jun 2017 16:07:24: Process for pairing-model is terminated! cat: SRX110787.10_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 `SRX110787.10_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 `SRX110787.10_*.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 `SRX110787.10_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 @ Tue, 27 Jun 2017 16:07:30: 31000000 INFO @ Tue, 27 Jun 2017 16:07:30: 31000000 INFO @ Tue, 27 Jun 2017 16:07:39: 32000000 INFO @ Tue, 27 Jun 2017 16:07:39: 32000000 INFO @ Tue, 27 Jun 2017 16:07:48: 33000000 INFO @ Tue, 27 Jun 2017 16:07:48: 33000000 INFO @ Tue, 27 Jun 2017 16:07:56: 34000000 INFO @ Tue, 27 Jun 2017 16:07:56: 34000000 INFO @ Tue, 27 Jun 2017 16:07:59: #1 tag size is determined as 40 bps INFO @ Tue, 27 Jun 2017 16:07:59: #1 tag size = 40 INFO @ Tue, 27 Jun 2017 16:07:59: #1 total tags in treatment: 34263479 INFO @ Tue, 27 Jun 2017 16:07:59: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 16:07:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 16:07:59: #1 tag size is determined as 40 bps INFO @ Tue, 27 Jun 2017 16:07:59: #1 tag size = 40 INFO @ Tue, 27 Jun 2017 16:07:59: #1 total tags in treatment: 34263479 INFO @ Tue, 27 Jun 2017 16:07:59: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 16:07:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 27 Jun 2017 16:08:00: #1 tags after filtering in treatment: 34263479 INFO @ Tue, 27 Jun 2017 16:08:00: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 16:08:00: #1 finished! INFO @ Tue, 27 Jun 2017 16:08:00: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 16:08:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 16:08:00: #1 tags after filtering in treatment: 34263479 INFO @ Tue, 27 Jun 2017 16:08:00: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 16:08:00: #1 finished! INFO @ Tue, 27 Jun 2017 16:08:00: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 16:08:00: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 16:08:02: #2 number of paired peaks: 4 WARNING @ Tue, 27 Jun 2017 16:08:02: Too few paired peaks (4) 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 @ Tue, 27 Jun 2017 16:08:02: Process for pairing-model is terminated! INFO @ Tue, 27 Jun 2017 16:08:02: #2 number of paired peaks: 4 WARNING @ Tue, 27 Jun 2017 16:08:02: Too few paired peaks (4) 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 @ Tue, 27 Jun 2017 16:08:02: Process for pairing-model is terminated! cat: SRX110787.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX110787.20_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 `SRX110787.05_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 `SRX110787.05_*.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 `SRX110787.05_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX110787.20_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 `SRX110787.20_*.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 `SRX110787.20_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。