Job ID = 9157786 sra ファイルのダウンロード中... Completed: 2215753K bytes transferred in 20 seconds (877523K 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 64271618 spots for /home/okishinya/chipatlas/results/ce10/SRX958298/SRR1917671.sra Written 64271618 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: 00:15:59 64271618 reads; of these: 64271618 (100.00%) were unpaired; of these: 20795028 (32.35%) aligned 0 times 35327564 (54.97%) aligned exactly 1 time 8149026 (12.68%) aligned >1 times 67.65% overall alignment rate Time searching: 00:15:59 Overall time: 00:15:59 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 20 files... [bam_rmdupse_core] 11100212 / 43476590 = 0.2553 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 14:04:13: # Command line: callpeak -t SRX958298.bam -f BAM -g ce -n SRX958298.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX958298.10 # format = BAM # ChIP-seq file = ['SRX958298.bam'] # control file = None # effective genome size = 9.00e+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 @ Tue, 27 Jun 2017 14:04:13: #1 read tag files... INFO @ Tue, 27 Jun 2017 14:04:13: # Command line: callpeak -t SRX958298.bam -f BAM -g ce -n SRX958298.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX958298.05 # format = BAM # ChIP-seq file = ['SRX958298.bam'] # control file = None # effective genome size = 9.00e+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 @ Tue, 27 Jun 2017 14:04:13: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 14:04:13: #1 read tag files... INFO @ Tue, 27 Jun 2017 14:04:13: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 14:04:13: # Command line: callpeak -t SRX958298.bam -f BAM -g ce -n SRX958298.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX958298.20 # format = BAM # ChIP-seq file = ['SRX958298.bam'] # control file = None # effective genome size = 9.00e+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 @ Tue, 27 Jun 2017 14:04:13: #1 read tag files... INFO @ Tue, 27 Jun 2017 14:04:13: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 14:04:20: 1000000 INFO @ Tue, 27 Jun 2017 14:04:21: 1000000 INFO @ Tue, 27 Jun 2017 14:04:22: 1000000 INFO @ Tue, 27 Jun 2017 14:04:27: 2000000 INFO @ Tue, 27 Jun 2017 14:04:29: 2000000 INFO @ Tue, 27 Jun 2017 14:04:30: 2000000 INFO @ Tue, 27 Jun 2017 14:04:34: 3000000 INFO @ Tue, 27 Jun 2017 14:04:37: 3000000 INFO @ Tue, 27 Jun 2017 14:04:39: 3000000 INFO @ Tue, 27 Jun 2017 14:04:41: 4000000 INFO @ Tue, 27 Jun 2017 14:04:45: 4000000 INFO @ Tue, 27 Jun 2017 14:04:48: 5000000 INFO @ Tue, 27 Jun 2017 14:04:48: 4000000 INFO @ Tue, 27 Jun 2017 14:04:53: 5000000 INFO @ Tue, 27 Jun 2017 14:04:54: 6000000 INFO @ Tue, 27 Jun 2017 14:04:57: 5000000 INFO @ Tue, 27 Jun 2017 14:05:01: 6000000 INFO @ Tue, 27 Jun 2017 14:05:01: 7000000 INFO @ Tue, 27 Jun 2017 14:05:05: 6000000 INFO @ Tue, 27 Jun 2017 14:05:08: 8000000 INFO @ Tue, 27 Jun 2017 14:05:09: 7000000 INFO @ Tue, 27 Jun 2017 14:05:14: 7000000 INFO @ Tue, 27 Jun 2017 14:05:15: 9000000 INFO @ Tue, 27 Jun 2017 14:05:16: 8000000 INFO @ Tue, 27 Jun 2017 14:05:22: 10000000 INFO @ Tue, 27 Jun 2017 14:05:23: 8000000 INFO @ Tue, 27 Jun 2017 14:05:24: 9000000 INFO @ Tue, 27 Jun 2017 14:05:29: 11000000 INFO @ Tue, 27 Jun 2017 14:05:32: 9000000 INFO @ Tue, 27 Jun 2017 14:05:32: 10000000 INFO @ Tue, 27 Jun 2017 14:05:35: 12000000 INFO @ Tue, 27 Jun 2017 14:05:40: 11000000 INFO @ Tue, 27 Jun 2017 14:05:40: 10000000 INFO @ Tue, 27 Jun 2017 14:05:42: 13000000 INFO @ Tue, 27 Jun 2017 14:05:48: 12000000 INFO @ Tue, 27 Jun 2017 14:05:49: 14000000 INFO @ Tue, 27 Jun 2017 14:05:49: 11000000 INFO @ Tue, 27 Jun 2017 14:05:56: 15000000 INFO @ Tue, 27 Jun 2017 14:05:56: 13000000 INFO @ Tue, 27 Jun 2017 14:05:58: 12000000 INFO @ Tue, 27 Jun 2017 14:06:03: 16000000 INFO @ Tue, 27 Jun 2017 14:06:04: 14000000 INFO @ Tue, 27 Jun 2017 14:06:07: 13000000 INFO @ Tue, 27 Jun 2017 14:06:10: 17000000 INFO @ Tue, 27 Jun 2017 14:06:12: 15000000 INFO @ Tue, 27 Jun 2017 14:06:15: 14000000 INFO @ Tue, 27 Jun 2017 14:06:16: 18000000 INFO @ Tue, 27 Jun 2017 14:06:20: 16000000 INFO @ Tue, 27 Jun 2017 14:06:23: 19000000 INFO @ Tue, 27 Jun 2017 14:06:24: 15000000 INFO @ Tue, 27 Jun 2017 14:06:28: 17000000 INFO @ Tue, 27 Jun 2017 14:06:30: 20000000 INFO @ Tue, 27 Jun 2017 14:06:33: 16000000 INFO @ Tue, 27 Jun 2017 14:06:36: 18000000 INFO @ Tue, 27 Jun 2017 14:06:37: 21000000 INFO @ Tue, 27 Jun 2017 14:06:42: 17000000 INFO @ Tue, 27 Jun 2017 14:06:44: 19000000 INFO @ Tue, 27 Jun 2017 14:06:44: 22000000 INFO @ Tue, 27 Jun 2017 14:06:51: 18000000 INFO @ Tue, 27 Jun 2017 14:06:51: 23000000 INFO @ Tue, 27 Jun 2017 14:06:51: 20000000 INFO @ Tue, 27 Jun 2017 14:06:57: 24000000 INFO @ Tue, 27 Jun 2017 14:06:59: 19000000 INFO @ Tue, 27 Jun 2017 14:06:59: 21000000 INFO @ Tue, 27 Jun 2017 14:07:04: 25000000 INFO @ Tue, 27 Jun 2017 14:07:07: 22000000 INFO @ Tue, 27 Jun 2017 14:07:08: 20000000 INFO @ Tue, 27 Jun 2017 14:07:11: 26000000 INFO @ Tue, 27 Jun 2017 14:07:15: 23000000 INFO @ Tue, 27 Jun 2017 14:07:17: 21000000 INFO @ Tue, 27 Jun 2017 14:07:18: 27000000 INFO @ Tue, 27 Jun 2017 14:07:23: 24000000 INFO @ Tue, 27 Jun 2017 14:07:24: 28000000 INFO @ Tue, 27 Jun 2017 14:07:26: 22000000 INFO @ Tue, 27 Jun 2017 14:07:31: 25000000 INFO @ Tue, 27 Jun 2017 14:07:31: 29000000 INFO @ Tue, 27 Jun 2017 14:07:34: 23000000 INFO @ Tue, 27 Jun 2017 14:07:38: 30000000 INFO @ Tue, 27 Jun 2017 14:07:39: 26000000 INFO @ Tue, 27 Jun 2017 14:07:43: 24000000 INFO @ Tue, 27 Jun 2017 14:07:45: 31000000 INFO @ Tue, 27 Jun 2017 14:07:47: 27000000 INFO @ Tue, 27 Jun 2017 14:07:52: 25000000 INFO @ Tue, 27 Jun 2017 14:07:52: 32000000 INFO @ Tue, 27 Jun 2017 14:07:54: #1 tag size is determined as 51 bps INFO @ Tue, 27 Jun 2017 14:07:54: #1 tag size = 51 INFO @ Tue, 27 Jun 2017 14:07:54: #1 total tags in treatment: 32376378 INFO @ Tue, 27 Jun 2017 14:07:54: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 14:07:54: #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 14:07:54: 28000000 INFO @ Tue, 27 Jun 2017 14:07:55: #1 tags after filtering in treatment: 32376378 INFO @ Tue, 27 Jun 2017 14:07:55: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 14:07:55: #1 finished! INFO @ Tue, 27 Jun 2017 14:07:55: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 14:07:55: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 14:07:57: #2 number of paired peaks: 55 WARNING @ Tue, 27 Jun 2017 14:07:57: Too few paired peaks (55) 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 14:07:57: Process for pairing-model is terminated! cat: SRX958298.10_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 `SRX958298.10_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 `SRX958298.10_*.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 `SRX958298.10_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 14:08:00: 26000000 INFO @ Tue, 27 Jun 2017 14:08:03: 29000000 INFO @ Tue, 27 Jun 2017 14:08:10: 27000000 INFO @ Tue, 27 Jun 2017 14:08:11: 30000000 INFO @ Tue, 27 Jun 2017 14:08:20: 28000000 INFO @ Tue, 27 Jun 2017 14:08:20: 31000000 INFO @ Tue, 27 Jun 2017 14:08:28: 32000000 INFO @ Tue, 27 Jun 2017 14:08:29: 29000000 INFO @ Tue, 27 Jun 2017 14:08:32: #1 tag size is determined as 51 bps INFO @ Tue, 27 Jun 2017 14:08:32: #1 tag size = 51 INFO @ Tue, 27 Jun 2017 14:08:32: #1 total tags in treatment: 32376378 INFO @ Tue, 27 Jun 2017 14:08:32: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 14:08:32: #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 14:08:32: #1 tags after filtering in treatment: 32376378 INFO @ Tue, 27 Jun 2017 14:08:32: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 14:08:32: #1 finished! INFO @ Tue, 27 Jun 2017 14:08:32: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 14:08:32: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 14:08:34: #2 number of paired peaks: 55 WARNING @ Tue, 27 Jun 2017 14:08:34: Too few paired peaks (55) 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 14:08:34: Process for pairing-model is terminated! cat: SRX958298.20_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 `SRX958298.20_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 `SRX958298.20_*.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 `SRX958298.20_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 @ Tue, 27 Jun 2017 14:08:38: 30000000 INFO @ Tue, 27 Jun 2017 14:08:47: 31000000 INFO @ Tue, 27 Jun 2017 14:08:56: 32000000 INFO @ Tue, 27 Jun 2017 14:09:00: #1 tag size is determined as 51 bps INFO @ Tue, 27 Jun 2017 14:09:00: #1 tag size = 51 INFO @ Tue, 27 Jun 2017 14:09:00: #1 total tags in treatment: 32376378 INFO @ Tue, 27 Jun 2017 14:09:00: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 14:09:00: #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 14:09:01: #1 tags after filtering in treatment: 32376378 INFO @ Tue, 27 Jun 2017 14:09:01: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 14:09:01: #1 finished! INFO @ Tue, 27 Jun 2017 14:09:01: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 14:09:01: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 14:09:03: #2 number of paired peaks: 55 WARNING @ Tue, 27 Jun 2017 14:09:03: Too few paired peaks (55) 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 14:09:03: Process for pairing-model is terminated! cat: SRX958298.05_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 `SRX958298.05_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 `SRX958298.05_*.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 `SRX958298.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。