Job ID = 10536503 sra ファイルのダウンロード中... Completed: 990274K bytes transferred in 17 seconds (476040K 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: PAIRED fastq に変換中... Written 25270319 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671198/SRR6696950.sra Written 25270319 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: 00:17:03 25270319 reads; of these: 25270319 (100.00%) were paired; of these: 3990264 (15.79%) aligned concordantly 0 times 18517640 (73.28%) aligned concordantly exactly 1 time 2762415 (10.93%) aligned concordantly >1 times ---- 3990264 pairs aligned concordantly 0 times; of these: 32128 (0.81%) aligned discordantly 1 time ---- 3958136 pairs aligned 0 times concordantly or discordantly; of these: 7916272 mates make up the pairs; of these: 7770188 (98.15%) aligned 0 times 109848 (1.39%) aligned exactly 1 time 36236 (0.46%) aligned >1 times 84.63% overall alignment rate Time searching: 00:17:03 Overall time: 00:17:03 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 20 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] 5447692 / 21298842 = 0.2558 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 @ Thu, 05 Apr 2018 10:20:45: # Command line: callpeak -t SRX3671198.bam -f BAM -g 12100000 -n SRX3671198.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671198.05 # format = BAM # ChIP-seq file = ['SRX3671198.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 @ Thu, 05 Apr 2018 10:20:45: # Command line: callpeak -t SRX3671198.bam -f BAM -g 12100000 -n SRX3671198.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671198.20 # format = BAM # ChIP-seq file = ['SRX3671198.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 @ Thu, 05 Apr 2018 10:20:45: # Command line: callpeak -t SRX3671198.bam -f BAM -g 12100000 -n SRX3671198.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671198.10 # format = BAM # ChIP-seq file = ['SRX3671198.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 @ Thu, 05 Apr 2018 10:20:45: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:20:45: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:20:45: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:20:45: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:20:45: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:20:45: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:20:50: 1000000 INFO @ Thu, 05 Apr 2018 10:20:51: 1000000 INFO @ Thu, 05 Apr 2018 10:20:51: 1000000 INFO @ Thu, 05 Apr 2018 10:20:56: 2000000 INFO @ Thu, 05 Apr 2018 10:20:56: 2000000 INFO @ Thu, 05 Apr 2018 10:20:56: 2000000 INFO @ Thu, 05 Apr 2018 10:21:01: 3000000 INFO @ Thu, 05 Apr 2018 10:21:01: 3000000 INFO @ Thu, 05 Apr 2018 10:21:01: 3000000 INFO @ Thu, 05 Apr 2018 10:21:06: 4000000 INFO @ Thu, 05 Apr 2018 10:21:07: 4000000 INFO @ Thu, 05 Apr 2018 10:21:07: 4000000 INFO @ Thu, 05 Apr 2018 10:21:11: 5000000 INFO @ Thu, 05 Apr 2018 10:21:12: 5000000 INFO @ Thu, 05 Apr 2018 10:21:12: 5000000 INFO @ Thu, 05 Apr 2018 10:21:17: 6000000 INFO @ Thu, 05 Apr 2018 10:21:17: 6000000 INFO @ Thu, 05 Apr 2018 10:21:18: 6000000 INFO @ Thu, 05 Apr 2018 10:21:22: 7000000 INFO @ Thu, 05 Apr 2018 10:21:23: 7000000 INFO @ Thu, 05 Apr 2018 10:21:23: 7000000 INFO @ Thu, 05 Apr 2018 10:21:27: 8000000 INFO @ Thu, 05 Apr 2018 10:21:28: 8000000 INFO @ Thu, 05 Apr 2018 10:21:29: 8000000 INFO @ Thu, 05 Apr 2018 10:21:33: 9000000 INFO @ Thu, 05 Apr 2018 10:21:33: 9000000 INFO @ Thu, 05 Apr 2018 10:21:34: 9000000 INFO @ Thu, 05 Apr 2018 10:21:38: 10000000 INFO @ Thu, 05 Apr 2018 10:21:39: 10000000 INFO @ Thu, 05 Apr 2018 10:21:40: 10000000 INFO @ Thu, 05 Apr 2018 10:21:43: 11000000 INFO @ Thu, 05 Apr 2018 10:21:44: 11000000 INFO @ Thu, 05 Apr 2018 10:21:46: 11000000 INFO @ Thu, 05 Apr 2018 10:21:48: 12000000 INFO @ Thu, 05 Apr 2018 10:21:49: 12000000 INFO @ Thu, 05 Apr 2018 10:21:51: 12000000 INFO @ Thu, 05 Apr 2018 10:21:53: 13000000 INFO @ Thu, 05 Apr 2018 10:21:55: 13000000 INFO @ Thu, 05 Apr 2018 10:21:57: 13000000 INFO @ Thu, 05 Apr 2018 10:21:59: 14000000 INFO @ Thu, 05 Apr 2018 10:22:00: 14000000 INFO @ Thu, 05 Apr 2018 10:22:02: 14000000 INFO @ Thu, 05 Apr 2018 10:22:04: 15000000 INFO @ Thu, 05 Apr 2018 10:22:06: 15000000 INFO @ Thu, 05 Apr 2018 10:22:08: 15000000 INFO @ Thu, 05 Apr 2018 10:22:09: 16000000 INFO @ Thu, 05 Apr 2018 10:22:11: 16000000 INFO @ Thu, 05 Apr 2018 10:22:14: 16000000 INFO @ Thu, 05 Apr 2018 10:22:14: 17000000 INFO @ Thu, 05 Apr 2018 10:22:16: 17000000 INFO @ Thu, 05 Apr 2018 10:22:19: 18000000 INFO @ Thu, 05 Apr 2018 10:22:19: 17000000 INFO @ Thu, 05 Apr 2018 10:22:22: 18000000 INFO @ Thu, 05 Apr 2018 10:22:24: 19000000 INFO @ Thu, 05 Apr 2018 10:22:25: 18000000 INFO @ Thu, 05 Apr 2018 10:22:27: 19000000 INFO @ Thu, 05 Apr 2018 10:22:30: 20000000 INFO @ Thu, 05 Apr 2018 10:22:30: 19000000 INFO @ Thu, 05 Apr 2018 10:22:32: 20000000 INFO @ Thu, 05 Apr 2018 10:22:35: 21000000 INFO @ Thu, 05 Apr 2018 10:22:36: 20000000 INFO @ Thu, 05 Apr 2018 10:22:37: 21000000 INFO @ Thu, 05 Apr 2018 10:22:40: 22000000 INFO @ Thu, 05 Apr 2018 10:22:41: 21000000 INFO @ Thu, 05 Apr 2018 10:22:43: 22000000 INFO @ Thu, 05 Apr 2018 10:22:45: 23000000 INFO @ Thu, 05 Apr 2018 10:22:47: 22000000 INFO @ Thu, 05 Apr 2018 10:22:48: 23000000 INFO @ Thu, 05 Apr 2018 10:22:51: 24000000 INFO @ Thu, 05 Apr 2018 10:22:52: 23000000 INFO @ Thu, 05 Apr 2018 10:22:53: 24000000 INFO @ Thu, 05 Apr 2018 10:22:56: 25000000 INFO @ Thu, 05 Apr 2018 10:22:57: 24000000 INFO @ Thu, 05 Apr 2018 10:22:58: 25000000 INFO @ Thu, 05 Apr 2018 10:23:01: 26000000 INFO @ Thu, 05 Apr 2018 10:23:03: 25000000 INFO @ Thu, 05 Apr 2018 10:23:04: 26000000 INFO @ Thu, 05 Apr 2018 10:23:07: 27000000 INFO @ Thu, 05 Apr 2018 10:23:08: 26000000 INFO @ Thu, 05 Apr 2018 10:23:09: 27000000 INFO @ Thu, 05 Apr 2018 10:23:12: 28000000 INFO @ Thu, 05 Apr 2018 10:23:14: 27000000 INFO @ Thu, 05 Apr 2018 10:23:14: 28000000 INFO @ Thu, 05 Apr 2018 10:23:17: 29000000 INFO @ Thu, 05 Apr 2018 10:23:19: 29000000 INFO @ Thu, 05 Apr 2018 10:23:19: 28000000 INFO @ Thu, 05 Apr 2018 10:23:23: 30000000 INFO @ Thu, 05 Apr 2018 10:23:25: 30000000 INFO @ Thu, 05 Apr 2018 10:23:25: 29000000 INFO @ Thu, 05 Apr 2018 10:23:28: 31000000 INFO @ Thu, 05 Apr 2018 10:23:30: 31000000 INFO @ Thu, 05 Apr 2018 10:23:30: 30000000 INFO @ Thu, 05 Apr 2018 10:23:32: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:23:32: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:23:32: #1 total tags in treatment: 15836765 INFO @ Thu, 05 Apr 2018 10:23:32: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:23:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:23:33: #1 tags after filtering in treatment: 6362109 INFO @ Thu, 05 Apr 2018 10:23:33: #1 Redundant rate of treatment: 0.60 INFO @ Thu, 05 Apr 2018 10:23:33: #1 finished! INFO @ Thu, 05 Apr 2018 10:23:33: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:23:33: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:23:33: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:23:33: 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 @ Thu, 05 Apr 2018 10:23:33: Process for pairing-model is terminated! cat: SRX3671198.20_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 `SRX3671198.20_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 `SRX3671198.20_*.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 `SRX3671198.20_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 @ Thu, 05 Apr 2018 10:23:35: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:23:35: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:23:35: #1 total tags in treatment: 15836765 INFO @ Thu, 05 Apr 2018 10:23:35: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:23:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:23:35: #1 tags after filtering in treatment: 6362109 INFO @ Thu, 05 Apr 2018 10:23:35: #1 Redundant rate of treatment: 0.60 INFO @ Thu, 05 Apr 2018 10:23:35: #1 finished! INFO @ Thu, 05 Apr 2018 10:23:35: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:23:35: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:23:36: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:23:36: 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 @ Thu, 05 Apr 2018 10:23:36: Process for pairing-model is terminated! cat: SRX3671198.05_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 `SRX3671198.05_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 `SRX3671198.05_*.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 `SRX3671198.05_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 @ Thu, 05 Apr 2018 10:23:36: 31000000 INFO @ Thu, 05 Apr 2018 10:23:41: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:23:41: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:23:41: #1 total tags in treatment: 15836765 INFO @ Thu, 05 Apr 2018 10:23:41: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:23:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:23:41: #1 tags after filtering in treatment: 6362109 INFO @ Thu, 05 Apr 2018 10:23:41: #1 Redundant rate of treatment: 0.60 INFO @ Thu, 05 Apr 2018 10:23:41: #1 finished! INFO @ Thu, 05 Apr 2018 10:23:41: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:23:41: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:23:42: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:23:42: 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 @ Thu, 05 Apr 2018 10:23:42: Process for pairing-model is terminated! cat: SRX3671198.10_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 `SRX3671198.10_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 `SRX3671198.10_*.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 `SRX3671198.10_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。