Job ID = 10536504 sra ファイルのダウンロード中... Completed: 1119760K bytes transferred in 29 seconds (314038K 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 31039253 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671199/SRR6696951.sra Written 31039253 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: 00:22:23 31039253 reads; of these: 31039253 (100.00%) were paired; of these: 3026049 (9.75%) aligned concordantly 0 times 24476216 (78.86%) aligned concordantly exactly 1 time 3536988 (11.40%) aligned concordantly >1 times ---- 3026049 pairs aligned concordantly 0 times; of these: 73327 (2.42%) aligned discordantly 1 time ---- 2952722 pairs aligned 0 times concordantly or discordantly; of these: 5905444 mates make up the pairs; of these: 5727881 (96.99%) aligned 0 times 122253 (2.07%) aligned exactly 1 time 55310 (0.94%) aligned >1 times 90.77% overall alignment rate Time searching: 00:22:23 Overall time: 00:22:23 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 24 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] 9676613 / 28058356 = 0.3449 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 10:30:46: # Command line: callpeak -t SRX3671199.bam -f BAM -g 12100000 -n SRX3671199.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671199.10 # format = BAM # ChIP-seq file = ['SRX3671199.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 10:30:46: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:30:46: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:30:46: # Command line: callpeak -t SRX3671199.bam -f BAM -g 12100000 -n SRX3671199.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671199.05 # format = BAM # ChIP-seq file = ['SRX3671199.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 10:30:46: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:30:46: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:30:46: # Command line: callpeak -t SRX3671199.bam -f BAM -g 12100000 -n SRX3671199.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671199.20 # format = BAM # ChIP-seq file = ['SRX3671199.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 10:30:46: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:30:46: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:30:52: 1000000 INFO @ Thu, 05 Apr 2018 10:30:52: 1000000 INFO @ Thu, 05 Apr 2018 10:30:52: 1000000 INFO @ Thu, 05 Apr 2018 10:30:58: 2000000 INFO @ Thu, 05 Apr 2018 10:30:58: 2000000 INFO @ Thu, 05 Apr 2018 10:30:58: 2000000 INFO @ Thu, 05 Apr 2018 10:31:04: 3000000 INFO @ Thu, 05 Apr 2018 10:31:04: 3000000 INFO @ Thu, 05 Apr 2018 10:31:04: 3000000 INFO @ Thu, 05 Apr 2018 10:31:10: 4000000 INFO @ Thu, 05 Apr 2018 10:31:11: 4000000 INFO @ Thu, 05 Apr 2018 10:31:11: 4000000 INFO @ Thu, 05 Apr 2018 10:31:16: 5000000 INFO @ Thu, 05 Apr 2018 10:31:17: 5000000 INFO @ Thu, 05 Apr 2018 10:31:17: 5000000 INFO @ Thu, 05 Apr 2018 10:31:22: 6000000 INFO @ Thu, 05 Apr 2018 10:31:23: 6000000 INFO @ Thu, 05 Apr 2018 10:31:23: 6000000 INFO @ Thu, 05 Apr 2018 10:31:28: 7000000 INFO @ Thu, 05 Apr 2018 10:31:29: 7000000 INFO @ Thu, 05 Apr 2018 10:31:29: 7000000 INFO @ Thu, 05 Apr 2018 10:31:34: 8000000 INFO @ Thu, 05 Apr 2018 10:31:36: 8000000 INFO @ Thu, 05 Apr 2018 10:31:36: 8000000 INFO @ Thu, 05 Apr 2018 10:31:40: 9000000 INFO @ Thu, 05 Apr 2018 10:31:42: 9000000 INFO @ Thu, 05 Apr 2018 10:31:42: 9000000 INFO @ Thu, 05 Apr 2018 10:31:46: 10000000 INFO @ Thu, 05 Apr 2018 10:31:48: 10000000 INFO @ Thu, 05 Apr 2018 10:31:48: 10000000 INFO @ Thu, 05 Apr 2018 10:31:52: 11000000 INFO @ Thu, 05 Apr 2018 10:31:54: 11000000 INFO @ Thu, 05 Apr 2018 10:31:55: 11000000 INFO @ Thu, 05 Apr 2018 10:31:58: 12000000 INFO @ Thu, 05 Apr 2018 10:32:00: 12000000 INFO @ Thu, 05 Apr 2018 10:32:01: 12000000 INFO @ Thu, 05 Apr 2018 10:32:04: 13000000 INFO @ Thu, 05 Apr 2018 10:32:07: 13000000 INFO @ Thu, 05 Apr 2018 10:32:07: 13000000 INFO @ Thu, 05 Apr 2018 10:32:11: 14000000 INFO @ Thu, 05 Apr 2018 10:32:12: 14000000 INFO @ Thu, 05 Apr 2018 10:32:13: 14000000 INFO @ Thu, 05 Apr 2018 10:32:17: 15000000 INFO @ Thu, 05 Apr 2018 10:32:18: 15000000 INFO @ Thu, 05 Apr 2018 10:32:20: 15000000 INFO @ Thu, 05 Apr 2018 10:32:24: 16000000 INFO @ Thu, 05 Apr 2018 10:32:24: 16000000 INFO @ Thu, 05 Apr 2018 10:32:26: 16000000 INFO @ Thu, 05 Apr 2018 10:32:30: 17000000 INFO @ Thu, 05 Apr 2018 10:32:30: 17000000 INFO @ Thu, 05 Apr 2018 10:32:32: 17000000 INFO @ Thu, 05 Apr 2018 10:32:36: 18000000 INFO @ Thu, 05 Apr 2018 10:32:36: 18000000 INFO @ Thu, 05 Apr 2018 10:32:38: 18000000 INFO @ Thu, 05 Apr 2018 10:32:42: 19000000 INFO @ Thu, 05 Apr 2018 10:32:42: 19000000 INFO @ Thu, 05 Apr 2018 10:32:44: 19000000 INFO @ Thu, 05 Apr 2018 10:32:48: 20000000 INFO @ Thu, 05 Apr 2018 10:32:48: 20000000 INFO @ Thu, 05 Apr 2018 10:32:50: 20000000 INFO @ Thu, 05 Apr 2018 10:32:54: 21000000 INFO @ Thu, 05 Apr 2018 10:32:54: 21000000 INFO @ Thu, 05 Apr 2018 10:32:57: 21000000 INFO @ Thu, 05 Apr 2018 10:33:00: 22000000 INFO @ Thu, 05 Apr 2018 10:33:00: 22000000 INFO @ Thu, 05 Apr 2018 10:33:03: 22000000 INFO @ Thu, 05 Apr 2018 10:33:06: 23000000 INFO @ Thu, 05 Apr 2018 10:33:06: 23000000 INFO @ Thu, 05 Apr 2018 10:33:09: 23000000 INFO @ Thu, 05 Apr 2018 10:33:12: 24000000 INFO @ Thu, 05 Apr 2018 10:33:13: 24000000 INFO @ Thu, 05 Apr 2018 10:33:15: 24000000 INFO @ Thu, 05 Apr 2018 10:33:18: 25000000 INFO @ Thu, 05 Apr 2018 10:33:19: 25000000 INFO @ Thu, 05 Apr 2018 10:33:22: 25000000 INFO @ Thu, 05 Apr 2018 10:33:23: 26000000 INFO @ Thu, 05 Apr 2018 10:33:26: 26000000 INFO @ Thu, 05 Apr 2018 10:33:28: 26000000 INFO @ Thu, 05 Apr 2018 10:33:30: 27000000 INFO @ Thu, 05 Apr 2018 10:33:32: 27000000 INFO @ Thu, 05 Apr 2018 10:33:34: 27000000 INFO @ Thu, 05 Apr 2018 10:33:36: 28000000 INFO @ Thu, 05 Apr 2018 10:33:38: 28000000 INFO @ Thu, 05 Apr 2018 10:33:41: 28000000 INFO @ Thu, 05 Apr 2018 10:33:43: 29000000 INFO @ Thu, 05 Apr 2018 10:33:43: 29000000 INFO @ Thu, 05 Apr 2018 10:33:47: 29000000 INFO @ Thu, 05 Apr 2018 10:33:49: 30000000 INFO @ Thu, 05 Apr 2018 10:33:49: 30000000 INFO @ Thu, 05 Apr 2018 10:33:54: 30000000 INFO @ Thu, 05 Apr 2018 10:33:55: 31000000 INFO @ Thu, 05 Apr 2018 10:33:55: 31000000 INFO @ Thu, 05 Apr 2018 10:34:00: 31000000 INFO @ Thu, 05 Apr 2018 10:34:01: 32000000 INFO @ Thu, 05 Apr 2018 10:34:02: 32000000 INFO @ Thu, 05 Apr 2018 10:34:06: 32000000 INFO @ Thu, 05 Apr 2018 10:34:07: 33000000 INFO @ Thu, 05 Apr 2018 10:34:07: 33000000 INFO @ Thu, 05 Apr 2018 10:34:12: 33000000 INFO @ Thu, 05 Apr 2018 10:34:13: 34000000 INFO @ Thu, 05 Apr 2018 10:34:13: 34000000 INFO @ Thu, 05 Apr 2018 10:34:18: 34000000 INFO @ Thu, 05 Apr 2018 10:34:19: 35000000 INFO @ Thu, 05 Apr 2018 10:34:19: 35000000 INFO @ Thu, 05 Apr 2018 10:34:24: 35000000 INFO @ Thu, 05 Apr 2018 10:34:25: 36000000 INFO @ Thu, 05 Apr 2018 10:34:26: 36000000 INFO @ Thu, 05 Apr 2018 10:34:30: 36000000 INFO @ Thu, 05 Apr 2018 10:34:31: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:34:31: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:34:31: #1 total tags in treatment: 18351803 INFO @ Thu, 05 Apr 2018 10:34:31: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:34:31: #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 10:34:32: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:34:32: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:34:32: #1 total tags in treatment: 18351803 INFO @ Thu, 05 Apr 2018 10:34:32: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:34:32: #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 10:34:32: #1 tags after filtering in treatment: 6823019 INFO @ Thu, 05 Apr 2018 10:34:32: #1 Redundant rate of treatment: 0.63 INFO @ Thu, 05 Apr 2018 10:34:32: #1 finished! INFO @ Thu, 05 Apr 2018 10:34:32: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:34:32: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:34:32: #1 tags after filtering in treatment: 6823019 INFO @ Thu, 05 Apr 2018 10:34:32: #1 Redundant rate of treatment: 0.63 INFO @ Thu, 05 Apr 2018 10:34:32: #1 finished! INFO @ Thu, 05 Apr 2018 10:34:32: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:34:32: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:34:32: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:34:32: 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 10:34:32: Process for pairing-model is terminated! cat: SRX3671199.05_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3671199.05_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 `SRX3671199.05_*.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 `SRX3671199.05_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 10:34:33: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:34:33: 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 10:34:33: Process for pairing-model is terminated! cat: SRX3671199.20_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 `SRX3671199.20_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 `SRX3671199.20_*.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 `SRX3671199.20_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 10:34:35: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:34:35: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:34:35: #1 total tags in treatment: 18351803 INFO @ Thu, 05 Apr 2018 10:34:35: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:34:35: #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 10:34:36: #1 tags after filtering in treatment: 6823019 INFO @ Thu, 05 Apr 2018 10:34:36: #1 Redundant rate of treatment: 0.63 INFO @ Thu, 05 Apr 2018 10:34:36: #1 finished! INFO @ Thu, 05 Apr 2018 10:34:36: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:34:36: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:34:36: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:34:36: 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 10:34:36: Process for pairing-model is terminated! cat: SRX3671199.10_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 `SRX3671199.10_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 `SRX3671199.10_*.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 `SRX3671199.10_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。