Job ID = 9158208 sra ファイルのダウンロード中... Completed: 1003325K bytes transferred in 9 seconds (887378K 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 40543642 spots for /home/okishinya/chipatlas/results/dm3/SRX110795/SRR388377.sra Written 40543642 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: 00:00:01 Multiseed full-index search: 00:10:28 40543642 reads; of these: 40543642 (100.00%) were unpaired; of these: 2399817 (5.92%) aligned 0 times 32696290 (80.64%) aligned exactly 1 time 5447535 (13.44%) aligned >1 times 94.08% overall alignment rate Time searching: 00:10:29 Overall time: 00:10:29 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] 6679021 / 38143825 = 0.1751 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 16:01:14: # Command line: callpeak -t SRX110795.bam -f BAM -g dm -n SRX110795.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX110795.05 # format = BAM # ChIP-seq file = ['SRX110795.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 16:01:14: #1 read tag files... INFO @ Tue, 27 Jun 2017 16:01:14: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 16:01:14: # Command line: callpeak -t SRX110795.bam -f BAM -g dm -n SRX110795.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX110795.20 # format = BAM # ChIP-seq file = ['SRX110795.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 16:01:14: #1 read tag files... INFO @ Tue, 27 Jun 2017 16:01:14: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 16:01:14: # Command line: callpeak -t SRX110795.bam -f BAM -g dm -n SRX110795.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX110795.10 # format = BAM # ChIP-seq file = ['SRX110795.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 16:01:14: #1 read tag files... INFO @ Tue, 27 Jun 2017 16:01:14: #1 read treatment tags... INFO @ Tue, 27 Jun 2017 16:01:20: 1000000 INFO @ Tue, 27 Jun 2017 16:01:20: 1000000 INFO @ Tue, 27 Jun 2017 16:01:20: 1000000 INFO @ Tue, 27 Jun 2017 16:01:26: 2000000 INFO @ Tue, 27 Jun 2017 16:01:26: 2000000 INFO @ Tue, 27 Jun 2017 16:01:26: 2000000 INFO @ Tue, 27 Jun 2017 16:01:32: 3000000 INFO @ Tue, 27 Jun 2017 16:01:32: 3000000 INFO @ Tue, 27 Jun 2017 16:01:32: 3000000 INFO @ Tue, 27 Jun 2017 16:01:38: 4000000 INFO @ Tue, 27 Jun 2017 16:01:38: 4000000 INFO @ Tue, 27 Jun 2017 16:01:38: 4000000 INFO @ Tue, 27 Jun 2017 16:01:44: 5000000 INFO @ Tue, 27 Jun 2017 16:01:44: 5000000 INFO @ Tue, 27 Jun 2017 16:01:44: 5000000 INFO @ Tue, 27 Jun 2017 16:01:50: 6000000 INFO @ Tue, 27 Jun 2017 16:01:50: 6000000 INFO @ Tue, 27 Jun 2017 16:01:51: 6000000 INFO @ Tue, 27 Jun 2017 16:01:56: 7000000 INFO @ Tue, 27 Jun 2017 16:01:57: 7000000 INFO @ Tue, 27 Jun 2017 16:01:57: 7000000 INFO @ Tue, 27 Jun 2017 16:02:02: 8000000 INFO @ Tue, 27 Jun 2017 16:02:03: 8000000 INFO @ Tue, 27 Jun 2017 16:02:03: 8000000 INFO @ Tue, 27 Jun 2017 16:02:08: 9000000 INFO @ Tue, 27 Jun 2017 16:02:09: 9000000 INFO @ Tue, 27 Jun 2017 16:02:09: 9000000 INFO @ Tue, 27 Jun 2017 16:02:14: 10000000 INFO @ Tue, 27 Jun 2017 16:02:15: 10000000 INFO @ Tue, 27 Jun 2017 16:02:16: 10000000 INFO @ Tue, 27 Jun 2017 16:02:20: 11000000 INFO @ Tue, 27 Jun 2017 16:02:22: 11000000 INFO @ Tue, 27 Jun 2017 16:02:22: 11000000 INFO @ Tue, 27 Jun 2017 16:02:26: 12000000 INFO @ Tue, 27 Jun 2017 16:02:28: 12000000 INFO @ Tue, 27 Jun 2017 16:02:28: 12000000 INFO @ Tue, 27 Jun 2017 16:02:32: 13000000 INFO @ Tue, 27 Jun 2017 16:02:34: 13000000 INFO @ Tue, 27 Jun 2017 16:02:35: 13000000 INFO @ Tue, 27 Jun 2017 16:02:38: 14000000 INFO @ Tue, 27 Jun 2017 16:02:41: 14000000 INFO @ Tue, 27 Jun 2017 16:02:41: 14000000 INFO @ Tue, 27 Jun 2017 16:02:44: 15000000 INFO @ Tue, 27 Jun 2017 16:02:47: 15000000 INFO @ Tue, 27 Jun 2017 16:02:48: 15000000 INFO @ Tue, 27 Jun 2017 16:02:49: 16000000 INFO @ Tue, 27 Jun 2017 16:02:53: 16000000 INFO @ Tue, 27 Jun 2017 16:02:54: 16000000 INFO @ Tue, 27 Jun 2017 16:02:55: 17000000 INFO @ Tue, 27 Jun 2017 16:03:00: 17000000 INFO @ Tue, 27 Jun 2017 16:03:01: 17000000 INFO @ Tue, 27 Jun 2017 16:03:01: 18000000 INFO @ Tue, 27 Jun 2017 16:03:06: 18000000 INFO @ Tue, 27 Jun 2017 16:03:07: 19000000 INFO @ Tue, 27 Jun 2017 16:03:07: 18000000 INFO @ Tue, 27 Jun 2017 16:03:13: 19000000 INFO @ Tue, 27 Jun 2017 16:03:13: 20000000 INFO @ Tue, 27 Jun 2017 16:03:14: 19000000 INFO @ Tue, 27 Jun 2017 16:03:19: 21000000 INFO @ Tue, 27 Jun 2017 16:03:19: 20000000 INFO @ Tue, 27 Jun 2017 16:03:20: 20000000 INFO @ Tue, 27 Jun 2017 16:03:25: 22000000 INFO @ Tue, 27 Jun 2017 16:03:25: 21000000 INFO @ Tue, 27 Jun 2017 16:03:27: 21000000 INFO @ Tue, 27 Jun 2017 16:03:31: 23000000 INFO @ Tue, 27 Jun 2017 16:03:32: 22000000 INFO @ Tue, 27 Jun 2017 16:03:33: 22000000 INFO @ Tue, 27 Jun 2017 16:03:37: 24000000 INFO @ Tue, 27 Jun 2017 16:03:38: 23000000 INFO @ Tue, 27 Jun 2017 16:03:40: 23000000 INFO @ Tue, 27 Jun 2017 16:03:43: 25000000 INFO @ Tue, 27 Jun 2017 16:03:45: 24000000 INFO @ Tue, 27 Jun 2017 16:03:46: 24000000 INFO @ Tue, 27 Jun 2017 16:03:49: 26000000 INFO @ Tue, 27 Jun 2017 16:03:51: 25000000 INFO @ Tue, 27 Jun 2017 16:03:53: 25000000 INFO @ Tue, 27 Jun 2017 16:03:55: 27000000 INFO @ Tue, 27 Jun 2017 16:03:58: 26000000 INFO @ Tue, 27 Jun 2017 16:04:00: 26000000 INFO @ Tue, 27 Jun 2017 16:04:01: 28000000 INFO @ Tue, 27 Jun 2017 16:04:05: 27000000 INFO @ Tue, 27 Jun 2017 16:04:07: 29000000 INFO @ Tue, 27 Jun 2017 16:04:07: 27000000 INFO @ Tue, 27 Jun 2017 16:04:11: 28000000 INFO @ Tue, 27 Jun 2017 16:04:13: 30000000 INFO @ Tue, 27 Jun 2017 16:04:13: 28000000 INFO @ Tue, 27 Jun 2017 16:04:18: 29000000 INFO @ Tue, 27 Jun 2017 16:04:19: 31000000 INFO @ Tue, 27 Jun 2017 16:04:20: 29000000 INFO @ Tue, 27 Jun 2017 16:04:22: #1 tag size is determined as 40 bps INFO @ Tue, 27 Jun 2017 16:04:22: #1 tag size = 40 INFO @ Tue, 27 Jun 2017 16:04:22: #1 total tags in treatment: 31464804 INFO @ Tue, 27 Jun 2017 16:04:22: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 16:04:22: #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 16:04:22: #1 tags after filtering in treatment: 31464804 INFO @ Tue, 27 Jun 2017 16:04:22: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 16:04:22: #1 finished! INFO @ Tue, 27 Jun 2017 16:04:22: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 16:04:22: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 16:04:24: 30000000 INFO @ Tue, 27 Jun 2017 16:04:24: #2 number of paired peaks: 7 WARNING @ Tue, 27 Jun 2017 16:04:24: Too few paired peaks (7) 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 16:04:24: Process for pairing-model is terminated! cat: SRX110795.10_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 `SRX110795.10_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 `SRX110795.10_*.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 `SRX110795.10_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 16:04:26: 30000000 INFO @ Tue, 27 Jun 2017 16:04:31: 31000000 INFO @ Tue, 27 Jun 2017 16:04:33: 31000000 INFO @ Tue, 27 Jun 2017 16:04:34: #1 tag size is determined as 40 bps INFO @ Tue, 27 Jun 2017 16:04:34: #1 tag size = 40 INFO @ Tue, 27 Jun 2017 16:04:34: #1 total tags in treatment: 31464804 INFO @ Tue, 27 Jun 2017 16:04:34: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 16:04:34: #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 16:04:34: #1 tags after filtering in treatment: 31464804 INFO @ Tue, 27 Jun 2017 16:04:34: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 16:04:34: #1 finished! INFO @ Tue, 27 Jun 2017 16:04:34: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 16:04:34: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 16:04:36: #1 tag size is determined as 40 bps INFO @ Tue, 27 Jun 2017 16:04:36: #1 tag size = 40 INFO @ Tue, 27 Jun 2017 16:04:36: #1 total tags in treatment: 31464804 INFO @ Tue, 27 Jun 2017 16:04:36: #1 user defined the maximum tags... INFO @ Tue, 27 Jun 2017 16:04:36: #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 16:04:36: #2 number of paired peaks: 7 WARNING @ Tue, 27 Jun 2017 16:04:36: Too few paired peaks (7) 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 16:04:36: Process for pairing-model is terminated! cat: SRX110795.05_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 `SRX110795.05_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 `SRX110795.05_*.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 `SRX110795.05_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 @ Tue, 27 Jun 2017 16:04:37: #1 tags after filtering in treatment: 31464804 INFO @ Tue, 27 Jun 2017 16:04:37: #1 Redundant rate of treatment: 0.00 INFO @ Tue, 27 Jun 2017 16:04:37: #1 finished! INFO @ Tue, 27 Jun 2017 16:04:37: #2 Build Peak Model... INFO @ Tue, 27 Jun 2017 16:04:37: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 27 Jun 2017 16:04:39: #2 number of paired peaks: 7 WARNING @ Tue, 27 Jun 2017 16:04:39: Too few paired peaks (7) 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 16:04:39: Process for pairing-model is terminated! cat: SRX110795.20_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 `SRX110795.20_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 `SRX110795.20_*.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 `SRX110795.20_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。