Job ID = 9162099 sra ファイルのダウンロード中... Completed: 829678K bytes transferred in 8 seconds (835379K 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 19533548 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1631833/SRR3225761.sra Written 19533548 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: 00:16:23 19533548 reads; of these: 19533548 (100.00%) were paired; of these: 722713 (3.70%) aligned concordantly 0 times 16903842 (86.54%) aligned concordantly exactly 1 time 1906993 (9.76%) aligned concordantly >1 times ---- 722713 pairs aligned concordantly 0 times; of these: 243325 (33.67%) aligned discordantly 1 time ---- 479388 pairs aligned 0 times concordantly or discordantly; of these: 958776 mates make up the pairs; of these: 770377 (80.35%) aligned 0 times 105210 (10.97%) aligned exactly 1 time 83189 (8.68%) aligned >1 times 98.03% overall alignment rate Time searching: 00:16:23 Overall time: 00:16:23 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] 227638 / 18925998 = 0.0120 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 06:17:34: # Command line: callpeak -t SRX1631833.bam -f BAM -g 12100000 -n SRX1631833.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1631833.20 # format = BAM # ChIP-seq file = ['SRX1631833.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 06:17:34: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:17:34: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:17:34: # Command line: callpeak -t SRX1631833.bam -f BAM -g 12100000 -n SRX1631833.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1631833.10 # format = BAM # ChIP-seq file = ['SRX1631833.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 06:17:34: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:17:34: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:17:34: # Command line: callpeak -t SRX1631833.bam -f BAM -g 12100000 -n SRX1631833.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1631833.05 # format = BAM # ChIP-seq file = ['SRX1631833.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 06:17:34: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:17:34: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:17:40: 1000000 INFO @ Wed, 28 Jun 2017 06:17:40: 1000000 INFO @ Wed, 28 Jun 2017 06:17:40: 1000000 INFO @ Wed, 28 Jun 2017 06:17:45: 2000000 INFO @ Wed, 28 Jun 2017 06:17:47: 2000000 INFO @ Wed, 28 Jun 2017 06:17:47: 2000000 INFO @ Wed, 28 Jun 2017 06:17:51: 3000000 INFO @ Wed, 28 Jun 2017 06:17:53: 3000000 INFO @ Wed, 28 Jun 2017 06:17:53: 3000000 INFO @ Wed, 28 Jun 2017 06:17:56: 4000000 INFO @ Wed, 28 Jun 2017 06:17:59: 4000000 INFO @ Wed, 28 Jun 2017 06:17:59: 4000000 INFO @ Wed, 28 Jun 2017 06:18:02: 5000000 INFO @ Wed, 28 Jun 2017 06:18:06: 5000000 INFO @ Wed, 28 Jun 2017 06:18:06: 5000000 INFO @ Wed, 28 Jun 2017 06:18:08: 6000000 INFO @ Wed, 28 Jun 2017 06:18:12: 6000000 INFO @ Wed, 28 Jun 2017 06:18:12: 6000000 INFO @ Wed, 28 Jun 2017 06:18:13: 7000000 INFO @ Wed, 28 Jun 2017 06:18:19: 8000000 INFO @ Wed, 28 Jun 2017 06:18:19: 7000000 INFO @ Wed, 28 Jun 2017 06:18:19: 7000000 INFO @ Wed, 28 Jun 2017 06:18:24: 9000000 INFO @ Wed, 28 Jun 2017 06:18:25: 8000000 INFO @ Wed, 28 Jun 2017 06:18:25: 8000000 INFO @ Wed, 28 Jun 2017 06:18:29: 10000000 INFO @ Wed, 28 Jun 2017 06:18:31: 9000000 INFO @ Wed, 28 Jun 2017 06:18:31: 9000000 INFO @ Wed, 28 Jun 2017 06:18:35: 11000000 INFO @ Wed, 28 Jun 2017 06:18:37: 10000000 INFO @ Wed, 28 Jun 2017 06:18:37: 10000000 INFO @ Wed, 28 Jun 2017 06:18:41: 12000000 INFO @ Wed, 28 Jun 2017 06:18:44: 11000000 INFO @ Wed, 28 Jun 2017 06:18:44: 11000000 INFO @ Wed, 28 Jun 2017 06:18:46: 13000000 INFO @ Wed, 28 Jun 2017 06:18:50: 12000000 INFO @ Wed, 28 Jun 2017 06:18:50: 12000000 INFO @ Wed, 28 Jun 2017 06:18:52: 14000000 INFO @ Wed, 28 Jun 2017 06:18:57: 13000000 INFO @ Wed, 28 Jun 2017 06:18:57: 13000000 INFO @ Wed, 28 Jun 2017 06:18:58: 15000000 INFO @ Wed, 28 Jun 2017 06:19:03: 14000000 INFO @ Wed, 28 Jun 2017 06:19:03: 14000000 INFO @ Wed, 28 Jun 2017 06:19:04: 16000000 INFO @ Wed, 28 Jun 2017 06:19:10: 15000000 INFO @ Wed, 28 Jun 2017 06:19:10: 15000000 INFO @ Wed, 28 Jun 2017 06:19:10: 17000000 INFO @ Wed, 28 Jun 2017 06:19:15: 18000000 INFO @ Wed, 28 Jun 2017 06:19:16: 16000000 INFO @ Wed, 28 Jun 2017 06:19:16: 16000000 INFO @ Wed, 28 Jun 2017 06:19:21: 19000000 INFO @ Wed, 28 Jun 2017 06:19:22: 17000000 INFO @ Wed, 28 Jun 2017 06:19:22: 17000000 INFO @ Wed, 28 Jun 2017 06:19:27: 20000000 INFO @ Wed, 28 Jun 2017 06:19:29: 18000000 INFO @ Wed, 28 Jun 2017 06:19:29: 18000000 INFO @ Wed, 28 Jun 2017 06:19:33: 21000000 INFO @ Wed, 28 Jun 2017 06:19:35: 19000000 INFO @ Wed, 28 Jun 2017 06:19:35: 19000000 INFO @ Wed, 28 Jun 2017 06:19:38: 22000000 INFO @ Wed, 28 Jun 2017 06:19:42: 20000000 INFO @ Wed, 28 Jun 2017 06:19:42: 20000000 INFO @ Wed, 28 Jun 2017 06:19:45: 23000000 INFO @ Wed, 28 Jun 2017 06:19:48: 21000000 INFO @ Wed, 28 Jun 2017 06:19:48: 21000000 INFO @ Wed, 28 Jun 2017 06:19:50: 24000000 INFO @ Wed, 28 Jun 2017 06:19:54: 22000000 INFO @ Wed, 28 Jun 2017 06:19:54: 22000000 INFO @ Wed, 28 Jun 2017 06:19:56: 25000000 INFO @ Wed, 28 Jun 2017 06:20:00: 23000000 INFO @ Wed, 28 Jun 2017 06:20:00: 23000000 INFO @ Wed, 28 Jun 2017 06:20:01: 26000000 INFO @ Wed, 28 Jun 2017 06:20:07: 24000000 INFO @ Wed, 28 Jun 2017 06:20:07: 24000000 INFO @ Wed, 28 Jun 2017 06:20:07: 27000000 INFO @ Wed, 28 Jun 2017 06:20:13: 28000000 INFO @ Wed, 28 Jun 2017 06:20:13: 25000000 INFO @ Wed, 28 Jun 2017 06:20:13: 25000000 INFO @ Wed, 28 Jun 2017 06:20:18: 29000000 INFO @ Wed, 28 Jun 2017 06:20:19: 26000000 INFO @ Wed, 28 Jun 2017 06:20:19: 26000000 INFO @ Wed, 28 Jun 2017 06:20:24: 30000000 INFO @ Wed, 28 Jun 2017 06:20:26: 27000000 INFO @ Wed, 28 Jun 2017 06:20:26: 27000000 INFO @ Wed, 28 Jun 2017 06:20:29: 31000000 INFO @ Wed, 28 Jun 2017 06:20:32: 28000000 INFO @ Wed, 28 Jun 2017 06:20:32: 28000000 INFO @ Wed, 28 Jun 2017 06:20:35: 32000000 INFO @ Wed, 28 Jun 2017 06:20:38: 29000000 INFO @ Wed, 28 Jun 2017 06:20:38: 29000000 INFO @ Wed, 28 Jun 2017 06:20:40: 33000000 INFO @ Wed, 28 Jun 2017 06:20:44: 30000000 INFO @ Wed, 28 Jun 2017 06:20:44: 30000000 INFO @ Wed, 28 Jun 2017 06:20:46: 34000000 INFO @ Wed, 28 Jun 2017 06:20:51: 31000000 INFO @ Wed, 28 Jun 2017 06:20:51: 31000000 INFO @ Wed, 28 Jun 2017 06:20:51: 35000000 INFO @ Wed, 28 Jun 2017 06:20:57: 36000000 INFO @ Wed, 28 Jun 2017 06:20:57: 32000000 INFO @ Wed, 28 Jun 2017 06:20:57: 32000000 INFO @ Wed, 28 Jun 2017 06:21:02: 37000000 INFO @ Wed, 28 Jun 2017 06:21:03: 33000000 INFO @ Wed, 28 Jun 2017 06:21:03: 33000000 INFO @ Wed, 28 Jun 2017 06:21:07: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:21:07: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:21:07: #1 total tags in treatment: 18583589 INFO @ Wed, 28 Jun 2017 06:21:07: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:21:07: #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 06:21:08: #1 tags after filtering in treatment: 12173939 INFO @ Wed, 28 Jun 2017 06:21:08: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 28 Jun 2017 06:21:08: #1 finished! INFO @ Wed, 28 Jun 2017 06:21:08: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:21:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:21:08: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:21:08: 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 06:21:08: Process for pairing-model is terminated! cat: SRX1631833.05_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 `SRX1631833.05_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 `SRX1631833.05_*.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 `SRX1631833.05_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 06:21:10: 34000000 INFO @ Wed, 28 Jun 2017 06:21:10: 34000000 INFO @ Wed, 28 Jun 2017 06:21:16: 35000000 INFO @ Wed, 28 Jun 2017 06:21:16: 35000000 INFO @ Wed, 28 Jun 2017 06:21:22: 36000000 INFO @ Wed, 28 Jun 2017 06:21:22: 36000000 INFO @ Wed, 28 Jun 2017 06:21:27: 37000000 INFO @ Wed, 28 Jun 2017 06:21:28: 37000000 INFO @ Wed, 28 Jun 2017 06:21:32: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:21:32: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:21:32: #1 total tags in treatment: 18583589 INFO @ Wed, 28 Jun 2017 06:21:32: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:21:32: #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 06:21:33: #1 tags after filtering in treatment: 12173939 INFO @ Wed, 28 Jun 2017 06:21:33: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 28 Jun 2017 06:21:33: #1 finished! INFO @ Wed, 28 Jun 2017 06:21:33: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:21:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:21:33: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:21:33: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:21:33: #1 total tags in treatment: 18583589 INFO @ Wed, 28 Jun 2017 06:21:33: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:21:33: #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 06:21:33: #1 tags after filtering in treatment: 12173939 INFO @ Wed, 28 Jun 2017 06:21:33: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 28 Jun 2017 06:21:33: #1 finished! INFO @ Wed, 28 Jun 2017 06:21:33: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:21:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:21:33: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:21:33: 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 06:21:33: Process for pairing-model is terminated! cat: SRX1631833.20_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 `SRX1631833.20_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 `SRX1631833.20_*.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 `SRX1631833.20_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 06:21:34: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:21:34: 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 @ Wed, 28 Jun 2017 06:21:34: Process for pairing-model is terminated! cat: SRX1631833.10_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 `SRX1631833.10_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 `SRX1631833.10_*.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 `SRX1631833.10_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。