Job ID = 10175262 sra ファイルのダウンロード中... Completed: 445157K bytes transferred in 18 seconds (195183K 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: SINGLE fastq に変換中... Written 26530201 spots for /home/okishinya/chipatlas/results/dm3/SRX3159466/SRR6004196.sra Written 26530201 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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:11:13 26530201 reads; of these: 26530201 (100.00%) were unpaired; of these: 855641 (3.23%) aligned 0 times 17811841 (67.14%) aligned exactly 1 time 7862719 (29.64%) aligned >1 times 96.77% overall alignment rate Time searching: 00:11:14 Overall time: 00:11:14 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] 2537461 / 25674560 = 0.0988 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 @ Mon, 06 Nov 2017 12:26:03: # Command line: callpeak -t SRX3159466.bam -f BAM -g dm -n SRX3159466.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3159466.05 # format = BAM # ChIP-seq file = ['SRX3159466.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 @ Mon, 06 Nov 2017 12:26:03: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:26:03: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:26:03: # Command line: callpeak -t SRX3159466.bam -f BAM -g dm -n SRX3159466.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3159466.10 # format = BAM # ChIP-seq file = ['SRX3159466.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 @ Mon, 06 Nov 2017 12:26:03: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:26:03: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:26:03: # Command line: callpeak -t SRX3159466.bam -f BAM -g dm -n SRX3159466.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3159466.20 # format = BAM # ChIP-seq file = ['SRX3159466.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 @ Mon, 06 Nov 2017 12:26:03: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:26:03: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:26:10: 1000000 INFO @ Mon, 06 Nov 2017 12:26:11: 1000000 INFO @ Mon, 06 Nov 2017 12:26:11: 1000000 INFO @ Mon, 06 Nov 2017 12:26:17: 2000000 INFO @ Mon, 06 Nov 2017 12:26:19: 2000000 INFO @ Mon, 06 Nov 2017 12:26:19: 2000000 INFO @ Mon, 06 Nov 2017 12:26:24: 3000000 INFO @ Mon, 06 Nov 2017 12:26:27: 3000000 INFO @ Mon, 06 Nov 2017 12:26:27: 3000000 INFO @ Mon, 06 Nov 2017 12:26:31: 4000000 INFO @ Mon, 06 Nov 2017 12:26:36: 4000000 INFO @ Mon, 06 Nov 2017 12:26:36: 4000000 INFO @ Mon, 06 Nov 2017 12:26:38: 5000000 INFO @ Mon, 06 Nov 2017 12:26:44: 5000000 INFO @ Mon, 06 Nov 2017 12:26:44: 5000000 INFO @ Mon, 06 Nov 2017 12:26:45: 6000000 INFO @ Mon, 06 Nov 2017 12:26:52: 6000000 INFO @ Mon, 06 Nov 2017 12:26:52: 6000000 INFO @ Mon, 06 Nov 2017 12:26:53: 7000000 INFO @ Mon, 06 Nov 2017 12:27:00: 7000000 INFO @ Mon, 06 Nov 2017 12:27:00: 7000000 INFO @ Mon, 06 Nov 2017 12:27:00: 8000000 INFO @ Mon, 06 Nov 2017 12:27:07: 9000000 INFO @ Mon, 06 Nov 2017 12:27:08: 8000000 INFO @ Mon, 06 Nov 2017 12:27:08: 8000000 INFO @ Mon, 06 Nov 2017 12:27:14: 10000000 INFO @ Mon, 06 Nov 2017 12:27:16: 9000000 INFO @ Mon, 06 Nov 2017 12:27:16: 9000000 INFO @ Mon, 06 Nov 2017 12:27:21: 11000000 INFO @ Mon, 06 Nov 2017 12:27:24: 10000000 INFO @ Mon, 06 Nov 2017 12:27:24: 10000000 INFO @ Mon, 06 Nov 2017 12:27:28: 12000000 INFO @ Mon, 06 Nov 2017 12:27:31: 11000000 INFO @ Mon, 06 Nov 2017 12:27:32: 11000000 INFO @ Mon, 06 Nov 2017 12:27:34: 13000000 INFO @ Mon, 06 Nov 2017 12:27:38: 12000000 INFO @ Mon, 06 Nov 2017 12:27:39: 12000000 INFO @ Mon, 06 Nov 2017 12:27:40: 14000000 INFO @ Mon, 06 Nov 2017 12:27:44: 13000000 INFO @ Mon, 06 Nov 2017 12:27:46: 13000000 INFO @ Mon, 06 Nov 2017 12:27:47: 15000000 INFO @ Mon, 06 Nov 2017 12:27:51: 14000000 INFO @ Mon, 06 Nov 2017 12:27:53: 14000000 INFO @ Mon, 06 Nov 2017 12:27:53: 16000000 INFO @ Mon, 06 Nov 2017 12:27:58: 15000000 INFO @ Mon, 06 Nov 2017 12:27:59: 17000000 INFO @ Mon, 06 Nov 2017 12:27:59: 15000000 INFO @ Mon, 06 Nov 2017 12:28:05: 16000000 INFO @ Mon, 06 Nov 2017 12:28:05: 18000000 INFO @ Mon, 06 Nov 2017 12:28:06: 16000000 INFO @ Mon, 06 Nov 2017 12:28:12: 19000000 INFO @ Mon, 06 Nov 2017 12:28:12: 17000000 INFO @ Mon, 06 Nov 2017 12:28:13: 17000000 INFO @ Mon, 06 Nov 2017 12:28:18: 20000000 INFO @ Mon, 06 Nov 2017 12:28:19: 18000000 INFO @ Mon, 06 Nov 2017 12:28:19: 18000000 INFO @ Mon, 06 Nov 2017 12:28:24: 21000000 INFO @ Mon, 06 Nov 2017 12:28:26: 19000000 INFO @ Mon, 06 Nov 2017 12:28:26: 19000000 INFO @ Mon, 06 Nov 2017 12:28:31: 22000000 INFO @ Mon, 06 Nov 2017 12:28:32: 20000000 INFO @ Mon, 06 Nov 2017 12:28:32: 20000000 INFO @ Mon, 06 Nov 2017 12:28:37: 23000000 INFO @ Mon, 06 Nov 2017 12:28:38: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:28:38: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:28:38: #1 total tags in treatment: 23137099 INFO @ Mon, 06 Nov 2017 12:28:38: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:28:38: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Nov 2017 12:28:38: #1 tags after filtering in treatment: 23137099 INFO @ Mon, 06 Nov 2017 12:28:38: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:28:38: #1 finished! INFO @ Mon, 06 Nov 2017 12:28:38: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:28:38: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:28:39: 21000000 INFO @ Mon, 06 Nov 2017 12:28:39: 21000000 INFO @ Mon, 06 Nov 2017 12:28:40: #2 number of paired peaks: 10 WARNING @ Mon, 06 Nov 2017 12:28:40: Too few paired peaks (10) 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 @ Mon, 06 Nov 2017 12:28:40: Process for pairing-model is terminated! cat: SRX3159466.20_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 `SRX3159466.20_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 `SRX3159466.20_*.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 `SRX3159466.20_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 @ Mon, 06 Nov 2017 12:28:45: 22000000 INFO @ Mon, 06 Nov 2017 12:28:45: 22000000 INFO @ Mon, 06 Nov 2017 12:28:51: 23000000 INFO @ Mon, 06 Nov 2017 12:28:51: 23000000 INFO @ Mon, 06 Nov 2017 12:28:52: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:28:52: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:28:52: #1 total tags in treatment: 23137099 INFO @ Mon, 06 Nov 2017 12:28:52: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:28:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Nov 2017 12:28:52: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:28:52: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:28:52: #1 total tags in treatment: 23137099 INFO @ Mon, 06 Nov 2017 12:28:52: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:28:52: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 06 Nov 2017 12:28:53: #1 tags after filtering in treatment: 23137099 INFO @ Mon, 06 Nov 2017 12:28:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:28:53: #1 finished! INFO @ Mon, 06 Nov 2017 12:28:53: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:28:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:28:53: #1 tags after filtering in treatment: 23137099 INFO @ Mon, 06 Nov 2017 12:28:53: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:28:53: #1 finished! INFO @ Mon, 06 Nov 2017 12:28:53: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:28:53: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:28:54: #2 number of paired peaks: 10 WARNING @ Mon, 06 Nov 2017 12:28:54: Too few paired peaks (10) 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 @ Mon, 06 Nov 2017 12:28:54: Process for pairing-model is terminated! cat: SRX3159466.10_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 `SRX3159466.10_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 `SRX3159466.10_*.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 `SRX3159466.10_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 @ Mon, 06 Nov 2017 12:28:55: #2 number of paired peaks: 10 WARNING @ Mon, 06 Nov 2017 12:28:55: Too few paired peaks (10) 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 @ Mon, 06 Nov 2017 12:28:55: Process for pairing-model is terminated! cat: SRX3159466.05_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 `SRX3159466.05_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 `SRX3159466.05_*.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 `SRX3159466.05_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。