Job ID = 10175237 sra ファイルのダウンロード中... Completed: 590368K bytes transferred in 30 seconds (159634K 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 32749079 spots for /home/okishinya/chipatlas/results/dm3/SRX2804215/SRR5534643.sra Written 32749079 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: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:13:52 32749079 reads; of these: 32749079 (100.00%) were unpaired; of these: 856214 (2.61%) aligned 0 times 21972092 (67.09%) aligned exactly 1 time 9920773 (30.29%) aligned >1 times 97.39% overall alignment rate Time searching: 00:13:52 Overall time: 00:13:52 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] 3439914 / 31892865 = 0.1079 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 12:05:26: # Command line: callpeak -t SRX2804215.bam -f BAM -g dm -n SRX2804215.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2804215.05 # format = BAM # ChIP-seq file = ['SRX2804215.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 12:05:26: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:05:26: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:05:26: # Command line: callpeak -t SRX2804215.bam -f BAM -g dm -n SRX2804215.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2804215.10 # format = BAM # ChIP-seq file = ['SRX2804215.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 12:05:26: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:05:26: # Command line: callpeak -t SRX2804215.bam -f BAM -g dm -n SRX2804215.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2804215.20 # format = BAM # ChIP-seq file = ['SRX2804215.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 12:05:26: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:05:26: #1 read tag files... INFO @ Mon, 06 Nov 2017 12:05:26: #1 read treatment tags... INFO @ Mon, 06 Nov 2017 12:05:32: 1000000 INFO @ Mon, 06 Nov 2017 12:05:32: 1000000 INFO @ Mon, 06 Nov 2017 12:05:32: 1000000 INFO @ Mon, 06 Nov 2017 12:05:38: 2000000 INFO @ Mon, 06 Nov 2017 12:05:38: 2000000 INFO @ Mon, 06 Nov 2017 12:05:38: 2000000 INFO @ Mon, 06 Nov 2017 12:05:44: 3000000 INFO @ Mon, 06 Nov 2017 12:05:44: 3000000 INFO @ Mon, 06 Nov 2017 12:05:44: 3000000 INFO @ Mon, 06 Nov 2017 12:05:49: 4000000 INFO @ Mon, 06 Nov 2017 12:05:50: 4000000 INFO @ Mon, 06 Nov 2017 12:05:50: 4000000 INFO @ Mon, 06 Nov 2017 12:05:55: 5000000 INFO @ Mon, 06 Nov 2017 12:05:56: 5000000 INFO @ Mon, 06 Nov 2017 12:05:56: 5000000 INFO @ Mon, 06 Nov 2017 12:06:01: 6000000 INFO @ Mon, 06 Nov 2017 12:06:02: 6000000 INFO @ Mon, 06 Nov 2017 12:06:02: 6000000 INFO @ Mon, 06 Nov 2017 12:06:07: 7000000 INFO @ Mon, 06 Nov 2017 12:06:08: 7000000 INFO @ Mon, 06 Nov 2017 12:06:08: 7000000 INFO @ Mon, 06 Nov 2017 12:06:13: 8000000 INFO @ Mon, 06 Nov 2017 12:06:14: 8000000 INFO @ Mon, 06 Nov 2017 12:06:14: 8000000 INFO @ Mon, 06 Nov 2017 12:06:19: 9000000 INFO @ Mon, 06 Nov 2017 12:06:20: 9000000 INFO @ Mon, 06 Nov 2017 12:06:20: 9000000 INFO @ Mon, 06 Nov 2017 12:06:24: 10000000 INFO @ Mon, 06 Nov 2017 12:06:26: 10000000 INFO @ Mon, 06 Nov 2017 12:06:27: 10000000 INFO @ Mon, 06 Nov 2017 12:06:30: 11000000 INFO @ Mon, 06 Nov 2017 12:06:32: 11000000 INFO @ Mon, 06 Nov 2017 12:06:33: 11000000 INFO @ Mon, 06 Nov 2017 12:06:36: 12000000 INFO @ Mon, 06 Nov 2017 12:06:38: 12000000 INFO @ Mon, 06 Nov 2017 12:06:39: 12000000 INFO @ Mon, 06 Nov 2017 12:06:42: 13000000 INFO @ Mon, 06 Nov 2017 12:06:44: 13000000 INFO @ Mon, 06 Nov 2017 12:06:45: 13000000 INFO @ Mon, 06 Nov 2017 12:06:48: 14000000 INFO @ Mon, 06 Nov 2017 12:06:51: 14000000 INFO @ Mon, 06 Nov 2017 12:06:52: 14000000 INFO @ Mon, 06 Nov 2017 12:06:53: 15000000 INFO @ Mon, 06 Nov 2017 12:06:57: 15000000 INFO @ Mon, 06 Nov 2017 12:06:58: 15000000 INFO @ Mon, 06 Nov 2017 12:06:59: 16000000 INFO @ Mon, 06 Nov 2017 12:07:03: 16000000 INFO @ Mon, 06 Nov 2017 12:07:04: 16000000 INFO @ Mon, 06 Nov 2017 12:07:05: 17000000 INFO @ Mon, 06 Nov 2017 12:07:09: 17000000 INFO @ Mon, 06 Nov 2017 12:07:10: 17000000 INFO @ Mon, 06 Nov 2017 12:07:11: 18000000 INFO @ Mon, 06 Nov 2017 12:07:15: 18000000 INFO @ Mon, 06 Nov 2017 12:07:17: 19000000 INFO @ Mon, 06 Nov 2017 12:07:17: 18000000 INFO @ Mon, 06 Nov 2017 12:07:22: 19000000 INFO @ Mon, 06 Nov 2017 12:07:22: 20000000 INFO @ Mon, 06 Nov 2017 12:07:23: 19000000 INFO @ Mon, 06 Nov 2017 12:07:28: 20000000 INFO @ Mon, 06 Nov 2017 12:07:28: 21000000 INFO @ Mon, 06 Nov 2017 12:07:29: 20000000 INFO @ Mon, 06 Nov 2017 12:07:34: 22000000 INFO @ Mon, 06 Nov 2017 12:07:34: 21000000 INFO @ Mon, 06 Nov 2017 12:07:36: 21000000 INFO @ Mon, 06 Nov 2017 12:07:40: 23000000 INFO @ Mon, 06 Nov 2017 12:07:40: 22000000 INFO @ Mon, 06 Nov 2017 12:07:42: 22000000 INFO @ Mon, 06 Nov 2017 12:07:45: 24000000 INFO @ Mon, 06 Nov 2017 12:07:46: 23000000 INFO @ Mon, 06 Nov 2017 12:07:48: 23000000 INFO @ Mon, 06 Nov 2017 12:07:51: 25000000 INFO @ Mon, 06 Nov 2017 12:07:53: 24000000 INFO @ Mon, 06 Nov 2017 12:07:55: 24000000 INFO @ Mon, 06 Nov 2017 12:07:57: 26000000 INFO @ Mon, 06 Nov 2017 12:07:59: 25000000 INFO @ Mon, 06 Nov 2017 12:08:01: 25000000 INFO @ Mon, 06 Nov 2017 12:08:03: 27000000 INFO @ Mon, 06 Nov 2017 12:08:05: 26000000 INFO @ Mon, 06 Nov 2017 12:08:07: 26000000 INFO @ Mon, 06 Nov 2017 12:08:09: 28000000 INFO @ Mon, 06 Nov 2017 12:08:11: 27000000 INFO @ Mon, 06 Nov 2017 12:08:12: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:08:12: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:08:12: #1 total tags in treatment: 28452951 INFO @ Mon, 06 Nov 2017 12:08:12: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:08:12: #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 12:08:12: #1 tags after filtering in treatment: 28452951 INFO @ Mon, 06 Nov 2017 12:08:12: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:08:12: #1 finished! INFO @ Mon, 06 Nov 2017 12:08:12: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:08:12: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:08:14: 27000000 INFO @ Mon, 06 Nov 2017 12:08:14: #2 number of paired peaks: 59 WARNING @ Mon, 06 Nov 2017 12:08:14: Too few paired peaks (59) 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 12:08:14: Process for pairing-model is terminated! cat: SRX2804215.05_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2804215.05_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 `SRX2804215.05_*.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 `SRX2804215.05_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 12:08:18: 28000000 INFO @ Mon, 06 Nov 2017 12:08:20: 28000000 INFO @ Mon, 06 Nov 2017 12:08:21: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:08:21: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:08:21: #1 total tags in treatment: 28452951 INFO @ Mon, 06 Nov 2017 12:08:21: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:08:21: #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 12:08:21: #1 tags after filtering in treatment: 28452951 INFO @ Mon, 06 Nov 2017 12:08:21: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:08:21: #1 finished! INFO @ Mon, 06 Nov 2017 12:08:21: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:08:21: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:08:23: #1 tag size is determined as 51 bps INFO @ Mon, 06 Nov 2017 12:08:23: #1 tag size = 51 INFO @ Mon, 06 Nov 2017 12:08:23: #1 total tags in treatment: 28452951 INFO @ Mon, 06 Nov 2017 12:08:23: #1 user defined the maximum tags... INFO @ Mon, 06 Nov 2017 12:08:23: #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 12:08:23: #2 number of paired peaks: 59 WARNING @ Mon, 06 Nov 2017 12:08:23: Too few paired peaks (59) 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 12:08:23: Process for pairing-model is terminated! cat: SRX2804215.20_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 `SRX2804215.20_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 `SRX2804215.20_*.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 `SRX2804215.20_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 12:08:23: #1 tags after filtering in treatment: 28452951 INFO @ Mon, 06 Nov 2017 12:08:23: #1 Redundant rate of treatment: 0.00 INFO @ Mon, 06 Nov 2017 12:08:23: #1 finished! INFO @ Mon, 06 Nov 2017 12:08:23: #2 Build Peak Model... INFO @ Mon, 06 Nov 2017 12:08:23: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 06 Nov 2017 12:08:25: #2 number of paired peaks: 59 WARNING @ Mon, 06 Nov 2017 12:08:25: Too few paired peaks (59) 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 12:08:25: Process for pairing-model is terminated! cat: SRX2804215.10_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 `SRX2804215.10_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 `SRX2804215.10_*.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 `SRX2804215.10_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。