Job ID = 11170815 sra ファイルのダウンロード中... Completed: 1458474K bytes transferred in 124 seconds (96009K 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... Read 50760011 spots for /home/okishinya/chipatlas/results/ce10/SRX2965740/SRR5766325.sra Written 50760011 spots for /home/okishinya/chipatlas/results/ce10/SRX2965740/SRR5766325.sra 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: 00:20:13 50760011 reads; of these: 50760011 (100.00%) were unpaired; of these: 1385833 (2.73%) aligned 0 times 41652019 (82.06%) aligned exactly 1 time 7722159 (15.21%) aligned >1 times 97.27% overall alignment rate Time searching: 00:20:13 Overall time: 00:20:13 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 24 files... [bam_rmdupse_core] 9879820 / 49374178 = 0.2001 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 @ Sat, 08 Sep 2018 12:03:13: # Command line: callpeak -t SRX2965740.bam -f BAM -g ce -n SRX2965740.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2965740.05 # format = BAM # ChIP-seq file = ['SRX2965740.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 @ Sat, 08 Sep 2018 12:03:13: # Command line: callpeak -t SRX2965740.bam -f BAM -g ce -n SRX2965740.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2965740.20 # format = BAM # ChIP-seq file = ['SRX2965740.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 @ Sat, 08 Sep 2018 12:03:13: # Command line: callpeak -t SRX2965740.bam -f BAM -g ce -n SRX2965740.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2965740.10 # format = BAM # ChIP-seq file = ['SRX2965740.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 @ Sat, 08 Sep 2018 12:03:13: #1 read tag files... INFO @ Sat, 08 Sep 2018 12:03:13: #1 read tag files... INFO @ Sat, 08 Sep 2018 12:03:13: #1 read tag files... INFO @ Sat, 08 Sep 2018 12:03:13: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 12:03:13: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 12:03:13: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 12:03:21: 1000000 INFO @ Sat, 08 Sep 2018 12:03:21: 1000000 INFO @ Sat, 08 Sep 2018 12:03:21: 1000000 INFO @ Sat, 08 Sep 2018 12:03:29: 2000000 INFO @ Sat, 08 Sep 2018 12:03:29: 2000000 INFO @ Sat, 08 Sep 2018 12:03:29: 2000000 INFO @ Sat, 08 Sep 2018 12:03:36: 3000000 INFO @ Sat, 08 Sep 2018 12:03:37: 3000000 INFO @ Sat, 08 Sep 2018 12:03:37: 3000000 INFO @ Sat, 08 Sep 2018 12:03:44: 4000000 INFO @ Sat, 08 Sep 2018 12:03:45: 4000000 INFO @ Sat, 08 Sep 2018 12:03:45: 4000000 INFO @ Sat, 08 Sep 2018 12:03:52: 5000000 INFO @ Sat, 08 Sep 2018 12:03:53: 5000000 INFO @ Sat, 08 Sep 2018 12:03:53: 5000000 INFO @ Sat, 08 Sep 2018 12:03:59: 6000000 INFO @ Sat, 08 Sep 2018 12:04:01: 6000000 INFO @ Sat, 08 Sep 2018 12:04:01: 6000000 INFO @ Sat, 08 Sep 2018 12:04:07: 7000000 INFO @ Sat, 08 Sep 2018 12:04:09: 7000000 INFO @ Sat, 08 Sep 2018 12:04:09: 7000000 INFO @ Sat, 08 Sep 2018 12:04:15: 8000000 INFO @ Sat, 08 Sep 2018 12:04:17: 8000000 INFO @ Sat, 08 Sep 2018 12:04:17: 8000000 INFO @ Sat, 08 Sep 2018 12:04:22: 9000000 INFO @ Sat, 08 Sep 2018 12:04:25: 9000000 INFO @ Sat, 08 Sep 2018 12:04:25: 9000000 INFO @ Sat, 08 Sep 2018 12:04:30: 10000000 INFO @ Sat, 08 Sep 2018 12:04:33: 10000000 INFO @ Sat, 08 Sep 2018 12:04:33: 10000000 INFO @ Sat, 08 Sep 2018 12:04:38: 11000000 INFO @ Sat, 08 Sep 2018 12:04:41: 11000000 INFO @ Sat, 08 Sep 2018 12:04:41: 11000000 INFO @ Sat, 08 Sep 2018 12:04:45: 12000000 INFO @ Sat, 08 Sep 2018 12:04:49: 12000000 INFO @ Sat, 08 Sep 2018 12:04:49: 12000000 INFO @ Sat, 08 Sep 2018 12:04:53: 13000000 INFO @ Sat, 08 Sep 2018 12:04:57: 13000000 INFO @ Sat, 08 Sep 2018 12:04:57: 13000000 INFO @ Sat, 08 Sep 2018 12:05:01: 14000000 INFO @ Sat, 08 Sep 2018 12:05:05: 14000000 INFO @ Sat, 08 Sep 2018 12:05:05: 14000000 INFO @ Sat, 08 Sep 2018 12:05:08: 15000000 INFO @ Sat, 08 Sep 2018 12:05:12: 15000000 INFO @ Sat, 08 Sep 2018 12:05:12: 15000000 INFO @ Sat, 08 Sep 2018 12:05:16: 16000000 INFO @ Sat, 08 Sep 2018 12:05:20: 16000000 INFO @ Sat, 08 Sep 2018 12:05:20: 16000000 INFO @ Sat, 08 Sep 2018 12:05:24: 17000000 INFO @ Sat, 08 Sep 2018 12:05:28: 17000000 INFO @ Sat, 08 Sep 2018 12:05:28: 17000000 INFO @ Sat, 08 Sep 2018 12:05:32: 18000000 INFO @ Sat, 08 Sep 2018 12:05:36: 18000000 INFO @ Sat, 08 Sep 2018 12:05:36: 18000000 INFO @ Sat, 08 Sep 2018 12:05:39: 19000000 INFO @ Sat, 08 Sep 2018 12:05:44: 19000000 INFO @ Sat, 08 Sep 2018 12:05:44: 19000000 INFO @ Sat, 08 Sep 2018 12:05:47: 20000000 INFO @ Sat, 08 Sep 2018 12:05:52: 20000000 INFO @ Sat, 08 Sep 2018 12:05:52: 20000000 INFO @ Sat, 08 Sep 2018 12:05:55: 21000000 INFO @ Sat, 08 Sep 2018 12:06:00: 21000000 INFO @ Sat, 08 Sep 2018 12:06:00: 21000000 INFO @ Sat, 08 Sep 2018 12:06:02: 22000000 INFO @ Sat, 08 Sep 2018 12:06:08: 22000000 INFO @ Sat, 08 Sep 2018 12:06:08: 22000000 INFO @ Sat, 08 Sep 2018 12:06:10: 23000000 INFO @ Sat, 08 Sep 2018 12:06:16: 23000000 INFO @ Sat, 08 Sep 2018 12:06:16: 23000000 INFO @ Sat, 08 Sep 2018 12:06:18: 24000000 INFO @ Sat, 08 Sep 2018 12:06:24: 24000000 INFO @ Sat, 08 Sep 2018 12:06:24: 24000000 INFO @ Sat, 08 Sep 2018 12:06:26: 25000000 INFO @ Sat, 08 Sep 2018 12:06:32: 25000000 INFO @ Sat, 08 Sep 2018 12:06:32: 25000000 INFO @ Sat, 08 Sep 2018 12:06:33: 26000000 INFO @ Sat, 08 Sep 2018 12:06:40: 26000000 INFO @ Sat, 08 Sep 2018 12:06:40: 26000000 INFO @ Sat, 08 Sep 2018 12:06:41: 27000000 INFO @ Sat, 08 Sep 2018 12:06:48: 27000000 INFO @ Sat, 08 Sep 2018 12:06:48: 27000000 INFO @ Sat, 08 Sep 2018 12:06:49: 28000000 INFO @ Sat, 08 Sep 2018 12:06:56: 28000000 INFO @ Sat, 08 Sep 2018 12:06:56: 28000000 INFO @ Sat, 08 Sep 2018 12:06:56: 29000000 INFO @ Sat, 08 Sep 2018 12:07:04: 29000000 INFO @ Sat, 08 Sep 2018 12:07:04: 30000000 INFO @ Sat, 08 Sep 2018 12:07:04: 29000000 INFO @ Sat, 08 Sep 2018 12:07:12: 31000000 INFO @ Sat, 08 Sep 2018 12:07:12: 30000000 INFO @ Sat, 08 Sep 2018 12:07:12: 30000000 INFO @ Sat, 08 Sep 2018 12:07:19: 32000000 INFO @ Sat, 08 Sep 2018 12:07:20: 31000000 INFO @ Sat, 08 Sep 2018 12:07:20: 31000000 INFO @ Sat, 08 Sep 2018 12:07:27: 33000000 INFO @ Sat, 08 Sep 2018 12:07:28: 32000000 INFO @ Sat, 08 Sep 2018 12:07:28: 32000000 INFO @ Sat, 08 Sep 2018 12:07:35: 34000000 INFO @ Sat, 08 Sep 2018 12:07:35: 33000000 INFO @ Sat, 08 Sep 2018 12:07:36: 33000000 INFO @ Sat, 08 Sep 2018 12:07:43: 35000000 INFO @ Sat, 08 Sep 2018 12:07:43: 34000000 INFO @ Sat, 08 Sep 2018 12:07:44: 34000000 INFO @ Sat, 08 Sep 2018 12:07:50: 36000000 INFO @ Sat, 08 Sep 2018 12:07:51: 35000000 INFO @ Sat, 08 Sep 2018 12:07:53: 35000000 INFO @ Sat, 08 Sep 2018 12:07:58: 37000000 INFO @ Sat, 08 Sep 2018 12:08:00: 36000000 INFO @ Sat, 08 Sep 2018 12:08:02: 36000000 INFO @ Sat, 08 Sep 2018 12:08:06: 38000000 INFO @ Sat, 08 Sep 2018 12:08:08: 37000000 INFO @ Sat, 08 Sep 2018 12:08:10: 37000000 INFO @ Sat, 08 Sep 2018 12:08:13: 39000000 INFO @ Sat, 08 Sep 2018 12:08:16: 38000000 INFO @ Sat, 08 Sep 2018 12:08:17: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:08:17: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:08:17: #1 total tags in treatment: 39494358 INFO @ Sat, 08 Sep 2018 12:08:17: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:08:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Sep 2018 12:08:18: #1 tags after filtering in treatment: 39494358 INFO @ Sat, 08 Sep 2018 12:08:18: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:08:18: #1 finished! INFO @ Sat, 08 Sep 2018 12:08:18: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:08:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:08:19: 38000000 INFO @ Sat, 08 Sep 2018 12:08:21: #2 number of paired peaks: 0 WARNING @ Sat, 08 Sep 2018 12:08:21: Too few paired peaks (0) 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 @ Sat, 08 Sep 2018 12:08:21: Process for pairing-model is terminated! cat: SRX2965740.10_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 `SRX2965740.10_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 `SRX2965740.10_*.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 `SRX2965740.10_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 @ Sat, 08 Sep 2018 12:08:24: 39000000 INFO @ Sat, 08 Sep 2018 12:08:27: 39000000 INFO @ Sat, 08 Sep 2018 12:08:28: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:08:28: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:08:28: #1 total tags in treatment: 39494358 INFO @ Sat, 08 Sep 2018 12:08:28: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:08:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Sep 2018 12:08:28: #1 tags after filtering in treatment: 39494358 INFO @ Sat, 08 Sep 2018 12:08:28: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:08:28: #1 finished! INFO @ Sat, 08 Sep 2018 12:08:28: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:08:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:08:31: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:08:31: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:08:31: #1 total tags in treatment: 39494358 INFO @ Sat, 08 Sep 2018 12:08:31: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:08:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 08 Sep 2018 12:08:31: #2 number of paired peaks: 0 WARNING @ Sat, 08 Sep 2018 12:08:31: Too few paired peaks (0) 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 @ Sat, 08 Sep 2018 12:08:31: Process for pairing-model is terminated! cat: SRX2965740.05_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 `SRX2965740.05_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 `SRX2965740.05_*.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 `SRX2965740.05_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 @ Sat, 08 Sep 2018 12:08:32: #1 tags after filtering in treatment: 39494358 INFO @ Sat, 08 Sep 2018 12:08:32: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:08:32: #1 finished! INFO @ Sat, 08 Sep 2018 12:08:32: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:08:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:08:34: #2 number of paired peaks: 0 WARNING @ Sat, 08 Sep 2018 12:08:34: Too few paired peaks (0) 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 @ Sat, 08 Sep 2018 12:08:34: Process for pairing-model is terminated! cat: SRX2965740.20_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2965740.20_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 `SRX2965740.20_*.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 `SRX2965740.20_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。