Job ID = 10175295 sra ファイルのダウンロード中... Completed: 637438K bytes transferred in 8 seconds (625304K 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 34918037 spots for /home/okishinya/chipatlas/results/dm3/SRX3159493/SRR6004223.sra Written 34918037 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: 00:16:00 34918037 reads; of these: 34918037 (100.00%) were unpaired; of these: 1097081 (3.14%) aligned 0 times 22517806 (64.49%) aligned exactly 1 time 11303150 (32.37%) aligned >1 times 96.86% overall alignment rate Time searching: 00:16:01 Overall time: 00:16:01 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 16 files... [bam_rmdupse_core] 5503615 / 33820956 = 0.1627 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 12:37:05: # Command line: callpeak -t SRX3159493.bam -f BAM -g dm -n SRX3159493.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3159493.05 # format = BAM # ChIP-seq file = ['SRX3159493.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 12:37:05: # Command line: callpeak -t SRX3159493.bam -f BAM -g dm -n SRX3159493.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3159493.10 # format = BAM # ChIP-seq file = ['SRX3159493.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 12:37:05: # Command line: callpeak -t SRX3159493.bam -f BAM -g dm -n SRX3159493.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3159493.20 # format = BAM # ChIP-seq file = ['SRX3159493.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 12:37:05: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:37:05: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:37:05: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:37:05: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:37:05: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:37:05: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:37:11: 1000000 INFO @ Mon, 06 Nov 2017 12:37:11: 1000000 INFO @ Mon, 06 Nov 2017 12:37:11: 1000000 INFO @ Mon, 06 Nov 2017 12:37:17: 2000000 INFO @ Mon, 06 Nov 2017 12:37:18: 2000000 INFO @ Mon, 06 Nov 2017 12:37:18: 2000000 INFO @ Mon, 06 Nov 2017 12:37:23: 3000000 INFO @ Mon, 06 Nov 2017 12:37:24: 3000000 INFO @ Mon, 06 Nov 2017 12:37:24: 3000000 INFO @ Mon, 06 Nov 2017 12:37:29: 4000000 INFO @ Mon, 06 Nov 2017 12:37:30: 4000000 INFO @ Mon, 06 Nov 2017 12:37:30: 4000000 INFO @ Mon, 06 Nov 2017 12:37:35: 5000000 INFO @ Mon, 06 Nov 2017 12:37:36: 5000000 INFO @ Mon, 06 Nov 2017 12:37:36: 5000000 INFO @ Mon, 06 Nov 2017 12:37:41: 6000000 INFO @ Mon, 06 Nov 2017 12:37:42: 6000000 INFO @ Mon, 06 Nov 2017 12:37:42: 6000000 INFO @ Mon, 06 Nov 2017 12:37:47: 7000000 INFO @ Mon, 06 Nov 2017 12:37:48: 7000000 INFO @ Mon, 06 Nov 2017 12:37:48: 7000000 INFO @ Mon, 06 Nov 2017 12:37:53: 8000000 INFO @ Mon, 06 Nov 2017 12:37:54: 8000000 INFO @ Mon, 06 Nov 2017 12:37:54: 8000000 INFO @ Mon, 06 Nov 2017 12:37:59: 9000000 INFO @ Mon, 06 Nov 2017 12:38:01: 9000000 INFO @ Mon, 06 Nov 2017 12:38:01: 9000000 INFO @ Mon, 06 Nov 2017 12:38:05: 10000000 INFO @ Mon, 06 Nov 2017 12:38:07: 10000000 INFO @ Mon, 06 Nov 2017 12:38:07: 10000000 INFO @ Mon, 06 Nov 2017 12:38:11: 11000000 INFO @ Mon, 06 Nov 2017 12:38:13: 11000000 INFO @ Mon, 06 Nov 2017 12:38:13: 11000000 INFO @ Mon, 06 Nov 2017 12:38:17: 12000000 INFO @ Mon, 06 Nov 2017 12:38:19: 12000000 INFO @ Mon, 06 Nov 2017 12:38:19: 12000000 INFO @ Mon, 06 Nov 2017 12:38:23: 13000000 INFO @ Mon, 06 Nov 2017 12:38:25: 13000000 INFO @ Mon, 06 Nov 2017 12:38:25: 13000000 INFO @ Mon, 06 Nov 2017 12:38:29: 14000000 INFO @ Mon, 06 Nov 2017 12:38:31: 14000000 INFO @ Mon, 06 Nov 2017 12:38:31: 14000000 INFO @ Mon, 06 Nov 2017 12:38:35: 15000000 INFO @ Mon, 06 Nov 2017 12:38:37: 15000000 INFO @ Mon, 06 Nov 2017 12:38:37: 15000000 INFO @ Mon, 06 Nov 2017 12:38:41: 16000000 INFO @ Mon, 06 Nov 2017 12:38:44: 16000000 INFO @ Mon, 06 Nov 2017 12:38:44: 16000000 INFO @ Mon, 06 Nov 2017 12:38:47: 17000000 INFO @ Mon, 06 Nov 2017 12:38:50: 17000000 INFO @ Mon, 06 Nov 2017 12:38:50: 17000000 INFO @ Mon, 06 Nov 2017 12:38:52: 18000000 INFO @ Mon, 06 Nov 2017 12:38:56: 18000000 INFO @ Mon, 06 Nov 2017 12:38:56: 18000000 INFO @ Mon, 06 Nov 2017 12:38:58: 19000000 INFO @ Mon, 06 Nov 2017 12:39:02: 19000000 INFO @ Mon, 06 Nov 2017 12:39:02: 19000000 INFO @ Mon, 06 Nov 2017 12:39:04: 20000000 INFO @ Mon, 06 Nov 2017 12:39:08: 20000000 INFO @ Mon, 06 Nov 2017 12:39:08: 20000000 INFO @ Mon, 06 Nov 2017 12:39:10: 21000000 INFO @ Mon, 06 Nov 2017 12:39:14: 21000000 INFO @ Mon, 06 Nov 2017 12:39:14: 21000000 INFO @ Mon, 06 Nov 2017 12:39:16: 22000000 INFO @ Mon, 06 Nov 2017 12:39:19: 22000000 INFO @ Mon, 06 Nov 2017 12:39:19: 22000000 INFO @ Mon, 06 Nov 2017 12:39:22: 23000000 INFO @ Mon, 06 Nov 2017 12:39:25: 23000000 INFO @ Mon, 06 Nov 2017 12:39:25: 23000000 INFO @ Mon, 06 Nov 2017 12:39:28: 24000000 INFO @ Mon, 06 Nov 2017 12:39:31: 24000000 INFO @ Mon, 06 Nov 2017 12:39:31: 24000000 INFO @ Mon, 06 Nov 2017 12:39:34: 25000000 INFO @ Mon, 06 Nov 2017 12:39:37: 25000000 INFO @ Mon, 06 Nov 2017 12:39:37: 25000000 INFO @ Mon, 06 Nov 2017 12:39:39: 26000000 INFO @ Mon, 06 Nov 2017 12:39:43: 26000000 INFO @ Mon, 06 Nov 2017 12:39:43: 26000000 INFO @ Mon, 06 Nov 2017 12:39:45: 27000000 INFO @ Mon, 06 Nov 2017 12:39:49: 27000000 INFO @ Mon, 06 Nov 2017 12:39:49: 27000000 INFO @ Mon, 06 Nov 2017 12:39:51: 28000000 INFO @ Mon, 06 Nov 2017 12:39:53: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:39:53: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:39:53: #1 total tags in treatment: 28317341 INFO @ Mon, 06 Nov 2017 12:39:53: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:39:53: #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 12:39:54: #1 tags after filtering in treatment: 28317341 INFO @ Mon, 06 Nov 2017 12:39:54: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:39:54: #1 finished! INFO @ Mon, 06 Nov 2017 12:39:54: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:39:54: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:39:54: 28000000 INFO @ Mon, 06 Nov 2017 12:39:55: 28000000 INFO @ Mon, 06 Nov 2017 12:39:56: #2 number of paired peaks: 68 WARNING @ Mon, 06 Nov 2017 12:39:56: Too few paired peaks (68) 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 12:39:56: Process for pairing-model is terminated! cat: SRX3159493.20_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 `SRX3159493.20_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 `SRX3159493.20_*.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 `SRX3159493.20_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 12:39:57: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:39:57: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:39:57: #1 total tags in treatment: 28317341 INFO @ Mon, 06 Nov 2017 12:39:57: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:39:57: #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 12:39:57: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:39:57: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:39:57: #1 total tags in treatment: 28317341 INFO @ Mon, 06 Nov 2017 12:39:57: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:39:57: #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 12:39:57: #1 tags after filtering in treatment: 28317341 INFO @ Mon, 06 Nov 2017 12:39:57: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:39:57: #1 finished! INFO @ Mon, 06 Nov 2017 12:39:57: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:39:57: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:39:57: #1 tags after filtering in treatment: 28317341 INFO @ Mon, 06 Nov 2017 12:39:57: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:39:57: #1 finished! INFO @ Mon, 06 Nov 2017 12:39:57: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:39:57: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:39:59: #2 number of paired peaks: 68 WARNING @ Mon, 06 Nov 2017 12:39:59: Too few paired peaks (68) 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 12:39:59: Process for pairing-model is terminated! cat: SRX3159493.05_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 `SRX3159493.05_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 `SRX3159493.05_*.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 `SRX3159493.05_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 @ Mon, 06 Nov 2017 12:39:59: #2 number of paired peaks: 68 WARNING @ Mon, 06 Nov 2017 12:39:59: Too few paired peaks (68) 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 12:39:59: Process for pairing-model is terminated! cat: SRX3159493.10_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 `SRX3159493.10_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 `SRX3159493.10_*.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 `SRX3159493.10_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。