Job ID = 11171144 sra ファイルのダウンロード中... Completed: 1260769K bytes transferred in 15 seconds (649933K 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 49026447 spots for /home/okishinya/chipatlas/results/dm3/SRX2325655/SRR4896343.sra Written 49026447 spots for /home/okishinya/chipatlas/results/dm3/SRX2325655/SRR4896343.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: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:22:55 49026447 reads; of these: 49026447 (100.00%) were unpaired; of these: 5189360 (10.58%) aligned 0 times 35308338 (72.02%) aligned exactly 1 time 8528749 (17.40%) aligned >1 times 89.42% overall alignment rate Time searching: 00:22:56 Overall time: 00:22:56 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 20 files... [bam_rmdupse_core] 8384617 / 43837087 = 0.1913 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 12:42:17: # Command line: callpeak -t SRX2325655.bam -f BAM -g dm -n SRX2325655.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2325655.10 # format = BAM # ChIP-seq file = ['SRX2325655.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 @ Sat, 08 Sep 2018 12:42:17: # Command line: callpeak -t SRX2325655.bam -f BAM -g dm -n SRX2325655.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2325655.05 # format = BAM # ChIP-seq file = ['SRX2325655.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 @ Sat, 08 Sep 2018 12:42:17: # Command line: callpeak -t SRX2325655.bam -f BAM -g dm -n SRX2325655.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2325655.20 # format = BAM # ChIP-seq file = ['SRX2325655.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 @ Sat, 08 Sep 2018 12:42:17: #1 read tag files... INFO @ Sat, 08 Sep 2018 12:42:17: #1 read tag files... INFO @ Sat, 08 Sep 2018 12:42:17: #1 read tag files... INFO @ Sat, 08 Sep 2018 12:42:17: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 12:42:17: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 12:42:17: #1 read treatment tags... INFO @ Sat, 08 Sep 2018 12:42:23: 1000000 INFO @ Sat, 08 Sep 2018 12:42:23: 1000000 INFO @ Sat, 08 Sep 2018 12:42:24: 1000000 INFO @ Sat, 08 Sep 2018 12:42:30: 2000000 INFO @ Sat, 08 Sep 2018 12:42:30: 2000000 INFO @ Sat, 08 Sep 2018 12:42:31: 2000000 INFO @ Sat, 08 Sep 2018 12:42:37: 3000000 INFO @ Sat, 08 Sep 2018 12:42:37: 3000000 INFO @ Sat, 08 Sep 2018 12:42:37: 3000000 INFO @ Sat, 08 Sep 2018 12:42:44: 4000000 INFO @ Sat, 08 Sep 2018 12:42:44: 4000000 INFO @ Sat, 08 Sep 2018 12:42:44: 4000000 INFO @ Sat, 08 Sep 2018 12:42:50: 5000000 INFO @ Sat, 08 Sep 2018 12:42:51: 5000000 INFO @ Sat, 08 Sep 2018 12:42:51: 5000000 INFO @ Sat, 08 Sep 2018 12:42:57: 6000000 INFO @ Sat, 08 Sep 2018 12:42:58: 6000000 INFO @ Sat, 08 Sep 2018 12:42:58: 6000000 INFO @ Sat, 08 Sep 2018 12:43:04: 7000000 INFO @ Sat, 08 Sep 2018 12:43:05: 7000000 INFO @ Sat, 08 Sep 2018 12:43:05: 7000000 INFO @ Sat, 08 Sep 2018 12:43:10: 8000000 INFO @ Sat, 08 Sep 2018 12:43:11: 8000000 INFO @ Sat, 08 Sep 2018 12:43:12: 8000000 INFO @ Sat, 08 Sep 2018 12:43:17: 9000000 INFO @ Sat, 08 Sep 2018 12:43:18: 9000000 INFO @ Sat, 08 Sep 2018 12:43:19: 9000000 INFO @ Sat, 08 Sep 2018 12:43:24: 10000000 INFO @ Sat, 08 Sep 2018 12:43:25: 10000000 INFO @ Sat, 08 Sep 2018 12:43:26: 10000000 INFO @ Sat, 08 Sep 2018 12:43:30: 11000000 INFO @ Sat, 08 Sep 2018 12:43:32: 11000000 INFO @ Sat, 08 Sep 2018 12:43:33: 11000000 INFO @ Sat, 08 Sep 2018 12:43:37: 12000000 INFO @ Sat, 08 Sep 2018 12:43:39: 12000000 INFO @ Sat, 08 Sep 2018 12:43:40: 12000000 INFO @ Sat, 08 Sep 2018 12:43:44: 13000000 INFO @ Sat, 08 Sep 2018 12:43:46: 13000000 INFO @ Sat, 08 Sep 2018 12:43:47: 13000000 INFO @ Sat, 08 Sep 2018 12:43:50: 14000000 INFO @ Sat, 08 Sep 2018 12:43:53: 14000000 INFO @ Sat, 08 Sep 2018 12:43:55: 14000000 INFO @ Sat, 08 Sep 2018 12:43:57: 15000000 INFO @ Sat, 08 Sep 2018 12:44:00: 15000000 INFO @ Sat, 08 Sep 2018 12:44:02: 15000000 INFO @ Sat, 08 Sep 2018 12:44:04: 16000000 INFO @ Sat, 08 Sep 2018 12:44:07: 16000000 INFO @ Sat, 08 Sep 2018 12:44:09: 16000000 INFO @ Sat, 08 Sep 2018 12:44:10: 17000000 INFO @ Sat, 08 Sep 2018 12:44:14: 17000000 INFO @ Sat, 08 Sep 2018 12:44:16: 17000000 INFO @ Sat, 08 Sep 2018 12:44:17: 18000000 INFO @ Sat, 08 Sep 2018 12:44:21: 18000000 INFO @ Sat, 08 Sep 2018 12:44:24: 19000000 INFO @ Sat, 08 Sep 2018 12:44:24: 18000000 INFO @ Sat, 08 Sep 2018 12:44:28: 19000000 INFO @ Sat, 08 Sep 2018 12:44:30: 20000000 INFO @ Sat, 08 Sep 2018 12:44:31: 19000000 INFO @ Sat, 08 Sep 2018 12:44:36: 20000000 INFO @ Sat, 08 Sep 2018 12:44:37: 21000000 INFO @ Sat, 08 Sep 2018 12:44:38: 20000000 INFO @ Sat, 08 Sep 2018 12:44:43: 21000000 INFO @ Sat, 08 Sep 2018 12:44:43: 22000000 INFO @ Sat, 08 Sep 2018 12:44:45: 21000000 INFO @ Sat, 08 Sep 2018 12:44:49: 22000000 INFO @ Sat, 08 Sep 2018 12:44:50: 23000000 INFO @ Sat, 08 Sep 2018 12:44:52: 22000000 INFO @ Sat, 08 Sep 2018 12:44:56: 23000000 INFO @ Sat, 08 Sep 2018 12:44:57: 24000000 INFO @ Sat, 08 Sep 2018 12:44:59: 23000000 INFO @ Sat, 08 Sep 2018 12:45:03: 25000000 INFO @ Sat, 08 Sep 2018 12:45:03: 24000000 INFO @ Sat, 08 Sep 2018 12:45:06: 24000000 INFO @ Sat, 08 Sep 2018 12:45:10: 26000000 INFO @ Sat, 08 Sep 2018 12:45:10: 25000000 INFO @ Sat, 08 Sep 2018 12:45:14: 25000000 INFO @ Sat, 08 Sep 2018 12:45:17: 27000000 INFO @ Sat, 08 Sep 2018 12:45:18: 26000000 INFO @ Sat, 08 Sep 2018 12:45:21: 26000000 INFO @ Sat, 08 Sep 2018 12:45:23: 28000000 INFO @ Sat, 08 Sep 2018 12:45:25: 27000000 INFO @ Sat, 08 Sep 2018 12:45:28: 27000000 INFO @ Sat, 08 Sep 2018 12:45:30: 29000000 INFO @ Sat, 08 Sep 2018 12:45:32: 28000000 INFO @ Sat, 08 Sep 2018 12:45:35: 28000000 INFO @ Sat, 08 Sep 2018 12:45:37: 30000000 INFO @ Sat, 08 Sep 2018 12:45:38: 29000000 INFO @ Sat, 08 Sep 2018 12:45:42: 29000000 INFO @ Sat, 08 Sep 2018 12:45:44: 31000000 INFO @ Sat, 08 Sep 2018 12:45:45: 30000000 INFO @ Sat, 08 Sep 2018 12:45:50: 30000000 INFO @ Sat, 08 Sep 2018 12:45:50: 32000000 INFO @ Sat, 08 Sep 2018 12:45:52: 31000000 INFO @ Sat, 08 Sep 2018 12:45:57: 31000000 INFO @ Sat, 08 Sep 2018 12:45:57: 33000000 INFO @ Sat, 08 Sep 2018 12:46:00: 32000000 INFO @ Sat, 08 Sep 2018 12:46:04: 34000000 INFO @ Sat, 08 Sep 2018 12:46:04: 32000000 INFO @ Sat, 08 Sep 2018 12:46:06: 33000000 INFO @ Sat, 08 Sep 2018 12:46:10: 35000000 INFO @ Sat, 08 Sep 2018 12:46:11: 33000000 INFO @ Sat, 08 Sep 2018 12:46:13: 34000000 INFO @ Sat, 08 Sep 2018 12:46:14: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:46:14: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:46:14: #1 total tags in treatment: 35452470 INFO @ Sat, 08 Sep 2018 12:46:14: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:46:14: #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 12:46:14: #1 tags after filtering in treatment: 35452470 INFO @ Sat, 08 Sep 2018 12:46:14: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:46:14: #1 finished! INFO @ Sat, 08 Sep 2018 12:46:14: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:46:14: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:46:17: #2 number of paired peaks: 6 WARNING @ Sat, 08 Sep 2018 12:46:17: Too few paired peaks (6) 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 12:46:17: Process for pairing-model is terminated! cat: SRX2325655.05_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 `SRX2325655.05_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 `SRX2325655.05_*.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 `SRX2325655.05_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 12:46:18: 34000000 INFO @ Sat, 08 Sep 2018 12:46:20: 35000000 INFO @ Sat, 08 Sep 2018 12:46:23: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:46:23: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:46:23: #1 total tags in treatment: 35452470 INFO @ Sat, 08 Sep 2018 12:46:23: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:46:23: #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 12:46:24: #1 tags after filtering in treatment: 35452470 INFO @ Sat, 08 Sep 2018 12:46:24: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:46:24: #1 finished! INFO @ Sat, 08 Sep 2018 12:46:24: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:46:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:46:25: 35000000 INFO @ Sat, 08 Sep 2018 12:46:27: #2 number of paired peaks: 6 WARNING @ Sat, 08 Sep 2018 12:46:27: Too few paired peaks (6) 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 12:46:27: Process for pairing-model is terminated! cat: SRX2325655.20_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2325655.20_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 `SRX2325655.20_*.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 `SRX2325655.20_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 @ Sat, 08 Sep 2018 12:46:28: #1 tag size is determined as 76 bps INFO @ Sat, 08 Sep 2018 12:46:28: #1 tag size = 76 INFO @ Sat, 08 Sep 2018 12:46:28: #1 total tags in treatment: 35452470 INFO @ Sat, 08 Sep 2018 12:46:28: #1 user defined the maximum tags... INFO @ Sat, 08 Sep 2018 12:46:28: #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 12:46:29: #1 tags after filtering in treatment: 35452470 INFO @ Sat, 08 Sep 2018 12:46:29: #1 Redundant rate of treatment: 0.00 INFO @ Sat, 08 Sep 2018 12:46:29: #1 finished! INFO @ Sat, 08 Sep 2018 12:46:29: #2 Build Peak Model... INFO @ Sat, 08 Sep 2018 12:46:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 08 Sep 2018 12:46:31: #2 number of paired peaks: 6 WARNING @ Sat, 08 Sep 2018 12:46:31: Too few paired peaks (6) 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 12:46:31: Process for pairing-model is terminated! cat: SRX2325655.10_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 `SRX2325655.10_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 `SRX2325655.10_*.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 `SRX2325655.10_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。