Job ID = 9162108 sra ファイルのダウンロード中... Completed: 927066K bytes transferred in 11 seconds (661179K bits/sec), in 1 file, 2 directories. sra ファイルのダウンロードが完了しました。 Read layout: PAIRED fastq に変換中... Written 18493879 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1631849/SRR3225788.sra Written 18493879 spots total 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: 00:16:53 18493879 reads; of these: 18493879 (100.00%) were paired; of these: 961095 (5.20%) aligned concordantly 0 times 13411747 (72.52%) aligned concordantly exactly 1 time 4121037 (22.28%) aligned concordantly >1 times ---- 961095 pairs aligned concordantly 0 times; of these: 345706 (35.97%) aligned discordantly 1 time ---- 615389 pairs aligned 0 times concordantly or discordantly; of these: 1230778 mates make up the pairs; of these: 744887 (60.52%) aligned 0 times 157483 (12.80%) aligned exactly 1 time 328408 (26.68%) aligned >1 times 97.99% overall alignment rate Time searching: 00:16:53 Overall time: 00:16:53 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 16 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 1485577 / 17831256 = 0.0833 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 @ Wed, 28 Jun 2017 06:20:58: # Command line: callpeak -t SRX1631849.bam -f BAM -g 12100000 -n SRX1631849.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1631849.20 # format = BAM # ChIP-seq file = ['SRX1631849.bam'] # control file = None # effective genome size = 1.21e+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 @ Wed, 28 Jun 2017 06:20:58: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:20:58: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:20:58: # Command line: callpeak -t SRX1631849.bam -f BAM -g 12100000 -n SRX1631849.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1631849.05 # format = BAM # ChIP-seq file = ['SRX1631849.bam'] # control file = None # effective genome size = 1.21e+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 @ Wed, 28 Jun 2017 06:20:58: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:20:58: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:20:58: # Command line: callpeak -t SRX1631849.bam -f BAM -g 12100000 -n SRX1631849.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1631849.10 # format = BAM # ChIP-seq file = ['SRX1631849.bam'] # control file = None # effective genome size = 1.21e+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 @ Wed, 28 Jun 2017 06:20:58: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:20:58: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:21:03: 1000000 INFO @ Wed, 28 Jun 2017 06:21:04: 1000000 INFO @ Wed, 28 Jun 2017 06:21:04: 1000000 INFO @ Wed, 28 Jun 2017 06:21:09: 2000000 INFO @ Wed, 28 Jun 2017 06:21:10: 2000000 INFO @ Wed, 28 Jun 2017 06:21:10: 2000000 INFO @ Wed, 28 Jun 2017 06:21:14: 3000000 INFO @ Wed, 28 Jun 2017 06:21:16: 3000000 INFO @ Wed, 28 Jun 2017 06:21:16: 3000000 INFO @ Wed, 28 Jun 2017 06:21:20: 4000000 INFO @ Wed, 28 Jun 2017 06:21:22: 4000000 INFO @ Wed, 28 Jun 2017 06:21:22: 4000000 INFO @ Wed, 28 Jun 2017 06:21:25: 5000000 INFO @ Wed, 28 Jun 2017 06:21:28: 5000000 INFO @ Wed, 28 Jun 2017 06:21:28: 5000000 INFO @ Wed, 28 Jun 2017 06:21:31: 6000000 INFO @ Wed, 28 Jun 2017 06:21:34: 6000000 INFO @ Wed, 28 Jun 2017 06:21:34: 6000000 INFO @ Wed, 28 Jun 2017 06:21:36: 7000000 INFO @ Wed, 28 Jun 2017 06:21:40: 7000000 INFO @ Wed, 28 Jun 2017 06:21:40: 7000000 INFO @ Wed, 28 Jun 2017 06:21:42: 8000000 INFO @ Wed, 28 Jun 2017 06:21:46: 8000000 INFO @ Wed, 28 Jun 2017 06:21:46: 8000000 INFO @ Wed, 28 Jun 2017 06:21:48: 9000000 INFO @ Wed, 28 Jun 2017 06:21:52: 9000000 INFO @ Wed, 28 Jun 2017 06:21:52: 9000000 INFO @ Wed, 28 Jun 2017 06:21:53: 10000000 INFO @ Wed, 28 Jun 2017 06:21:58: 10000000 INFO @ Wed, 28 Jun 2017 06:21:58: 10000000 INFO @ Wed, 28 Jun 2017 06:21:59: 11000000 INFO @ Wed, 28 Jun 2017 06:22:04: 11000000 INFO @ Wed, 28 Jun 2017 06:22:04: 12000000 INFO @ Wed, 28 Jun 2017 06:22:05: 11000000 INFO @ Wed, 28 Jun 2017 06:22:10: 13000000 INFO @ Wed, 28 Jun 2017 06:22:10: 12000000 INFO @ Wed, 28 Jun 2017 06:22:11: 12000000 INFO @ Wed, 28 Jun 2017 06:22:16: 14000000 INFO @ Wed, 28 Jun 2017 06:22:16: 13000000 INFO @ Wed, 28 Jun 2017 06:22:17: 13000000 INFO @ Wed, 28 Jun 2017 06:22:21: 15000000 INFO @ Wed, 28 Jun 2017 06:22:23: 14000000 INFO @ Wed, 28 Jun 2017 06:22:23: 14000000 INFO @ Wed, 28 Jun 2017 06:22:27: 16000000 INFO @ Wed, 28 Jun 2017 06:22:29: 15000000 INFO @ Wed, 28 Jun 2017 06:22:30: 15000000 INFO @ Wed, 28 Jun 2017 06:22:32: 17000000 INFO @ Wed, 28 Jun 2017 06:22:35: 16000000 INFO @ Wed, 28 Jun 2017 06:22:36: 16000000 INFO @ Wed, 28 Jun 2017 06:22:38: 18000000 INFO @ Wed, 28 Jun 2017 06:22:42: 17000000 INFO @ Wed, 28 Jun 2017 06:22:43: 17000000 INFO @ Wed, 28 Jun 2017 06:22:44: 19000000 INFO @ Wed, 28 Jun 2017 06:22:48: 18000000 INFO @ Wed, 28 Jun 2017 06:22:49: 20000000 INFO @ Wed, 28 Jun 2017 06:22:49: 18000000 INFO @ Wed, 28 Jun 2017 06:22:54: 19000000 INFO @ Wed, 28 Jun 2017 06:22:55: 21000000 INFO @ Wed, 28 Jun 2017 06:22:56: 19000000 INFO @ Wed, 28 Jun 2017 06:23:00: 22000000 INFO @ Wed, 28 Jun 2017 06:23:00: 20000000 INFO @ Wed, 28 Jun 2017 06:23:02: 20000000 INFO @ Wed, 28 Jun 2017 06:23:06: 23000000 INFO @ Wed, 28 Jun 2017 06:23:07: 21000000 INFO @ Wed, 28 Jun 2017 06:23:09: 21000000 INFO @ Wed, 28 Jun 2017 06:23:11: 24000000 INFO @ Wed, 28 Jun 2017 06:23:13: 22000000 INFO @ Wed, 28 Jun 2017 06:23:15: 22000000 INFO @ Wed, 28 Jun 2017 06:23:17: 25000000 INFO @ Wed, 28 Jun 2017 06:23:19: 23000000 INFO @ Wed, 28 Jun 2017 06:23:21: 23000000 INFO @ Wed, 28 Jun 2017 06:23:22: 26000000 INFO @ Wed, 28 Jun 2017 06:23:25: 24000000 INFO @ Wed, 28 Jun 2017 06:23:28: 27000000 INFO @ Wed, 28 Jun 2017 06:23:28: 24000000 INFO @ Wed, 28 Jun 2017 06:23:32: 25000000 INFO @ Wed, 28 Jun 2017 06:23:33: 28000000 INFO @ Wed, 28 Jun 2017 06:23:34: 25000000 INFO @ Wed, 28 Jun 2017 06:23:38: 26000000 INFO @ Wed, 28 Jun 2017 06:23:38: 29000000 INFO @ Wed, 28 Jun 2017 06:23:41: 26000000 INFO @ Wed, 28 Jun 2017 06:23:44: 30000000 INFO @ Wed, 28 Jun 2017 06:23:44: 27000000 INFO @ Wed, 28 Jun 2017 06:23:47: 27000000 INFO @ Wed, 28 Jun 2017 06:23:49: 31000000 INFO @ Wed, 28 Jun 2017 06:23:51: 28000000 INFO @ Wed, 28 Jun 2017 06:23:54: 28000000 INFO @ Wed, 28 Jun 2017 06:23:54: 32000000 INFO @ Wed, 28 Jun 2017 06:23:57: 29000000 INFO @ Wed, 28 Jun 2017 06:24:00: 33000000 INFO @ Wed, 28 Jun 2017 06:24:00: 29000000 INFO @ Wed, 28 Jun 2017 06:24:01: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:24:01: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:24:01: #1 total tags in treatment: 16049918 INFO @ Wed, 28 Jun 2017 06:24:01: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:24:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 06:24:02: #1 tags after filtering in treatment: 8275846 INFO @ Wed, 28 Jun 2017 06:24:02: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 28 Jun 2017 06:24:02: #1 finished! INFO @ Wed, 28 Jun 2017 06:24:02: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:24:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:24:02: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:24:02: 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 @ Wed, 28 Jun 2017 06:24:02: Process for pairing-model is terminated! cat: SRX1631849.20_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 `SRX1631849.20_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 `SRX1631849.20_*.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 `SRX1631849.20_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 @ Wed, 28 Jun 2017 06:24:04: 30000000 INFO @ Wed, 28 Jun 2017 06:24:07: 30000000 INFO @ Wed, 28 Jun 2017 06:24:10: 31000000 INFO @ Wed, 28 Jun 2017 06:24:13: 31000000 INFO @ Wed, 28 Jun 2017 06:24:17: 32000000 INFO @ Wed, 28 Jun 2017 06:24:20: 32000000 INFO @ Wed, 28 Jun 2017 06:24:23: 33000000 INFO @ Wed, 28 Jun 2017 06:24:25: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:24:25: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:24:25: #1 total tags in treatment: 16049918 INFO @ Wed, 28 Jun 2017 06:24:25: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:24:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 06:24:25: #1 tags after filtering in treatment: 8275846 INFO @ Wed, 28 Jun 2017 06:24:25: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 28 Jun 2017 06:24:25: #1 finished! INFO @ Wed, 28 Jun 2017 06:24:25: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:24:25: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:24:26: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:24:26: 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 @ Wed, 28 Jun 2017 06:24:26: Process for pairing-model is terminated! cat: SRX1631849.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1631849.05_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 `SRX1631849.05_*.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 `SRX1631849.05_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 @ Wed, 28 Jun 2017 06:24:26: 33000000 INFO @ Wed, 28 Jun 2017 06:24:28: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:24:28: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:24:28: #1 total tags in treatment: 16049918 INFO @ Wed, 28 Jun 2017 06:24:28: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:24:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 06:24:28: #1 tags after filtering in treatment: 8275846 INFO @ Wed, 28 Jun 2017 06:24:28: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 28 Jun 2017 06:24:28: #1 finished! INFO @ Wed, 28 Jun 2017 06:24:28: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:24:28: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:24:29: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:24:29: 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 @ Wed, 28 Jun 2017 06:24:29: Process for pairing-model is terminated! cat: SRX1631849.10_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 `SRX1631849.10_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 `SRX1631849.10_*.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 `SRX1631849.10_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。