Job ID = 11192898 sra ファイルのダウンロード中... Completed: 1142304K bytes transferred in 65 seconds (143807K 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... Read 15879660 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2771776/SRR5488931.sra Written 15879660 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2771776/SRR5488931.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: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:14:19 15879660 reads; of these: 15879660 (100.00%) were paired; of these: 2470811 (15.56%) aligned concordantly 0 times 9361252 (58.95%) aligned concordantly exactly 1 time 4047597 (25.49%) aligned concordantly >1 times ---- 2470811 pairs aligned concordantly 0 times; of these: 17743 (0.72%) aligned discordantly 1 time ---- 2453068 pairs aligned 0 times concordantly or discordantly; of these: 4906136 mates make up the pairs; of these: 4598310 (93.73%) aligned 0 times 226855 (4.62%) aligned exactly 1 time 80971 (1.65%) aligned >1 times 85.52% overall alignment rate Time searching: 00:14:19 Overall time: 00:14:19 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 12 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] 2560446 / 13412698 = 0.1909 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, 15 Sep 2018 10:44:40: # Command line: callpeak -t SRX2771776.bam -f BAM -g 12100000 -n SRX2771776.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2771776.20 # format = BAM # ChIP-seq file = ['SRX2771776.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 @ Sat, 15 Sep 2018 10:44:40: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:44:40: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:44:40: # Command line: callpeak -t SRX2771776.bam -f BAM -g 12100000 -n SRX2771776.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2771776.10 # format = BAM # ChIP-seq file = ['SRX2771776.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 @ Sat, 15 Sep 2018 10:44:40: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:44:40: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:44:40: # Command line: callpeak -t SRX2771776.bam -f BAM -g 12100000 -n SRX2771776.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2771776.05 # format = BAM # ChIP-seq file = ['SRX2771776.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 @ Sat, 15 Sep 2018 10:44:40: #1 read tag files... INFO @ Sat, 15 Sep 2018 10:44:40: #1 read treatment tags... INFO @ Sat, 15 Sep 2018 10:44:47: 1000000 INFO @ Sat, 15 Sep 2018 10:44:47: 1000000 INFO @ Sat, 15 Sep 2018 10:44:47: 1000000 INFO @ Sat, 15 Sep 2018 10:44:54: 2000000 INFO @ Sat, 15 Sep 2018 10:44:55: 2000000 INFO @ Sat, 15 Sep 2018 10:44:55: 2000000 INFO @ Sat, 15 Sep 2018 10:45:01: 3000000 INFO @ Sat, 15 Sep 2018 10:45:02: 3000000 INFO @ Sat, 15 Sep 2018 10:45:02: 3000000 INFO @ Sat, 15 Sep 2018 10:45:08: 4000000 INFO @ Sat, 15 Sep 2018 10:45:10: 4000000 INFO @ Sat, 15 Sep 2018 10:45:10: 4000000 INFO @ Sat, 15 Sep 2018 10:45:15: 5000000 INFO @ Sat, 15 Sep 2018 10:45:17: 5000000 INFO @ Sat, 15 Sep 2018 10:45:17: 5000000 INFO @ Sat, 15 Sep 2018 10:45:22: 6000000 INFO @ Sat, 15 Sep 2018 10:45:25: 6000000 INFO @ Sat, 15 Sep 2018 10:45:25: 6000000 INFO @ Sat, 15 Sep 2018 10:45:29: 7000000 INFO @ Sat, 15 Sep 2018 10:45:32: 7000000 INFO @ Sat, 15 Sep 2018 10:45:32: 7000000 INFO @ Sat, 15 Sep 2018 10:45:36: 8000000 INFO @ Sat, 15 Sep 2018 10:45:39: 8000000 INFO @ Sat, 15 Sep 2018 10:45:39: 8000000 INFO @ Sat, 15 Sep 2018 10:45:43: 9000000 INFO @ Sat, 15 Sep 2018 10:45:47: 9000000 INFO @ Sat, 15 Sep 2018 10:45:47: 9000000 INFO @ Sat, 15 Sep 2018 10:45:50: 10000000 INFO @ Sat, 15 Sep 2018 10:45:54: 10000000 INFO @ Sat, 15 Sep 2018 10:45:54: 10000000 INFO @ Sat, 15 Sep 2018 10:45:57: 11000000 INFO @ Sat, 15 Sep 2018 10:46:01: 11000000 INFO @ Sat, 15 Sep 2018 10:46:02: 11000000 INFO @ Sat, 15 Sep 2018 10:46:05: 12000000 INFO @ Sat, 15 Sep 2018 10:46:08: 12000000 INFO @ Sat, 15 Sep 2018 10:46:09: 12000000 INFO @ Sat, 15 Sep 2018 10:46:12: 13000000 INFO @ Sat, 15 Sep 2018 10:46:15: 13000000 INFO @ Sat, 15 Sep 2018 10:46:17: 13000000 INFO @ Sat, 15 Sep 2018 10:46:19: 14000000 INFO @ Sat, 15 Sep 2018 10:46:22: 14000000 INFO @ Sat, 15 Sep 2018 10:46:24: 14000000 INFO @ Sat, 15 Sep 2018 10:46:27: 15000000 INFO @ Sat, 15 Sep 2018 10:46:28: 15000000 INFO @ Sat, 15 Sep 2018 10:46:31: 15000000 INFO @ Sat, 15 Sep 2018 10:46:34: 16000000 INFO @ Sat, 15 Sep 2018 10:46:35: 16000000 INFO @ Sat, 15 Sep 2018 10:46:39: 16000000 INFO @ Sat, 15 Sep 2018 10:46:41: 17000000 INFO @ Sat, 15 Sep 2018 10:46:42: 17000000 INFO @ Sat, 15 Sep 2018 10:46:46: 17000000 INFO @ Sat, 15 Sep 2018 10:46:49: 18000000 INFO @ Sat, 15 Sep 2018 10:46:49: 18000000 INFO @ Sat, 15 Sep 2018 10:46:54: 18000000 INFO @ Sat, 15 Sep 2018 10:46:56: 19000000 INFO @ Sat, 15 Sep 2018 10:46:56: 19000000 INFO @ Sat, 15 Sep 2018 10:47:01: 19000000 INFO @ Sat, 15 Sep 2018 10:47:03: 20000000 INFO @ Sat, 15 Sep 2018 10:47:03: 20000000 INFO @ Sat, 15 Sep 2018 10:47:09: 20000000 INFO @ Sat, 15 Sep 2018 10:47:10: 21000000 INFO @ Sat, 15 Sep 2018 10:47:11: 21000000 INFO @ Sat, 15 Sep 2018 10:47:16: 21000000 INFO @ Sat, 15 Sep 2018 10:47:17: 22000000 INFO @ Sat, 15 Sep 2018 10:47:17: #1 tag size is determined as 76 bps INFO @ Sat, 15 Sep 2018 10:47:17: #1 tag size = 76 INFO @ Sat, 15 Sep 2018 10:47:17: #1 total tags in treatment: 10848720 INFO @ Sat, 15 Sep 2018 10:47:17: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:47:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:47:18: #1 tags after filtering in treatment: 6884515 INFO @ Sat, 15 Sep 2018 10:47:18: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Sep 2018 10:47:18: #1 finished! INFO @ Sat, 15 Sep 2018 10:47:18: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:47:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:47:18: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:47:18: 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 @ Sat, 15 Sep 2018 10:47:18: Process for pairing-model is terminated! cat: SRX2771776.20_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2771776.20_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 `SRX2771776.20_*.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 `SRX2771776.20_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, 15 Sep 2018 10:47:19: 22000000 INFO @ Sat, 15 Sep 2018 10:47:19: #1 tag size is determined as 76 bps INFO @ Sat, 15 Sep 2018 10:47:19: #1 tag size = 76 INFO @ Sat, 15 Sep 2018 10:47:19: #1 total tags in treatment: 10848720 INFO @ Sat, 15 Sep 2018 10:47:19: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:47:19: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:47:19: #1 tags after filtering in treatment: 6884515 INFO @ Sat, 15 Sep 2018 10:47:19: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Sep 2018 10:47:19: #1 finished! INFO @ Sat, 15 Sep 2018 10:47:19: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:47:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:47:20: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:47:20: 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 @ Sat, 15 Sep 2018 10:47:20: Process for pairing-model is terminated! cat: SRX2771776.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2771776.10_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 `SRX2771776.10_*.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 `SRX2771776.10_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 INFO @ Sat, 15 Sep 2018 10:47:24: 22000000 INFO @ Sat, 15 Sep 2018 10:47:24: #1 tag size is determined as 76 bps INFO @ Sat, 15 Sep 2018 10:47:24: #1 tag size = 76 INFO @ Sat, 15 Sep 2018 10:47:24: #1 total tags in treatment: 10848720 INFO @ Sat, 15 Sep 2018 10:47:24: #1 user defined the maximum tags... INFO @ Sat, 15 Sep 2018 10:47:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Sep 2018 10:47:24: #1 tags after filtering in treatment: 6884515 INFO @ Sat, 15 Sep 2018 10:47:24: #1 Redundant rate of treatment: 0.37 INFO @ Sat, 15 Sep 2018 10:47:24: #1 finished! INFO @ Sat, 15 Sep 2018 10:47:24: #2 Build Peak Model... INFO @ Sat, 15 Sep 2018 10:47:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Sep 2018 10:47:25: #2 number of paired peaks: 0 WARNING @ Sat, 15 Sep 2018 10:47:25: 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 @ Sat, 15 Sep 2018 10:47:25: Process for pairing-model is terminated! cat: SRX2771776.05_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 `SRX2771776.05_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 `SRX2771776.05_*.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 `SRX2771776.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。