Job ID = 9732091 sra ファイルのダウンロード中... Completed: 332832K bytes transferred in 12 seconds (225492K 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 14334766 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2675881/SRR5380658.sra Written 14334766 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: 00:06:29 14334766 reads; of these: 14334766 (100.00%) were paired; of these: 3022210 (21.08%) aligned concordantly 0 times 10216508 (71.27%) aligned concordantly exactly 1 time 1096048 (7.65%) aligned concordantly >1 times ---- 3022210 pairs aligned concordantly 0 times; of these: 698251 (23.10%) aligned discordantly 1 time ---- 2323959 pairs aligned 0 times concordantly or discordantly; of these: 4647918 mates make up the pairs; of these: 3937048 (84.71%) aligned 0 times 489902 (10.54%) aligned exactly 1 time 220968 (4.75%) aligned >1 times 86.27% overall alignment rate Time searching: 00:06:29 Overall time: 00:06:29 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 8 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] 1735177 / 11735219 = 0.1479 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 @ Sun, 03 Sep 2017 19:41:20: # Command line: callpeak -t SRX2675881.bam -f BAM -g 12100000 -n SRX2675881.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2675881.20 # format = BAM # ChIP-seq file = ['SRX2675881.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 @ Sun, 03 Sep 2017 19:41:20: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:41:20: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:41:20: # Command line: callpeak -t SRX2675881.bam -f BAM -g 12100000 -n SRX2675881.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2675881.05 # format = BAM # ChIP-seq file = ['SRX2675881.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 @ Sun, 03 Sep 2017 19:41:20: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:41:20: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:41:20: # Command line: callpeak -t SRX2675881.bam -f BAM -g 12100000 -n SRX2675881.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2675881.10 # format = BAM # ChIP-seq file = ['SRX2675881.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 @ Sun, 03 Sep 2017 19:41:20: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:41:20: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:41:25: 1000000 INFO @ Sun, 03 Sep 2017 19:41:25: 1000000 INFO @ Sun, 03 Sep 2017 19:41:25: 1000000 INFO @ Sun, 03 Sep 2017 19:41:30: 2000000 INFO @ Sun, 03 Sep 2017 19:41:30: 2000000 INFO @ Sun, 03 Sep 2017 19:41:30: 2000000 INFO @ Sun, 03 Sep 2017 19:41:35: 3000000 INFO @ Sun, 03 Sep 2017 19:41:35: 3000000 INFO @ Sun, 03 Sep 2017 19:41:36: 3000000 INFO @ Sun, 03 Sep 2017 19:41:41: 4000000 INFO @ Sun, 03 Sep 2017 19:41:41: 4000000 INFO @ Sun, 03 Sep 2017 19:41:41: 4000000 INFO @ Sun, 03 Sep 2017 19:41:46: 5000000 INFO @ Sun, 03 Sep 2017 19:41:46: 5000000 INFO @ Sun, 03 Sep 2017 19:41:46: 5000000 INFO @ Sun, 03 Sep 2017 19:41:51: 6000000 INFO @ Sun, 03 Sep 2017 19:41:51: 6000000 INFO @ Sun, 03 Sep 2017 19:41:51: 6000000 INFO @ Sun, 03 Sep 2017 19:41:56: 7000000 INFO @ Sun, 03 Sep 2017 19:41:56: 7000000 INFO @ Sun, 03 Sep 2017 19:41:56: 7000000 INFO @ Sun, 03 Sep 2017 19:42:01: 8000000 INFO @ Sun, 03 Sep 2017 19:42:01: 8000000 INFO @ Sun, 03 Sep 2017 19:42:01: 8000000 INFO @ Sun, 03 Sep 2017 19:42:06: 9000000 INFO @ Sun, 03 Sep 2017 19:42:06: 9000000 INFO @ Sun, 03 Sep 2017 19:42:06: 9000000 INFO @ Sun, 03 Sep 2017 19:42:11: 10000000 INFO @ Sun, 03 Sep 2017 19:42:11: 10000000 INFO @ Sun, 03 Sep 2017 19:42:11: 10000000 INFO @ Sun, 03 Sep 2017 19:42:16: 11000000 INFO @ Sun, 03 Sep 2017 19:42:16: 11000000 INFO @ Sun, 03 Sep 2017 19:42:16: 11000000 INFO @ Sun, 03 Sep 2017 19:42:21: 12000000 INFO @ Sun, 03 Sep 2017 19:42:21: 12000000 INFO @ Sun, 03 Sep 2017 19:42:22: 12000000 INFO @ Sun, 03 Sep 2017 19:42:26: 13000000 INFO @ Sun, 03 Sep 2017 19:42:26: 13000000 INFO @ Sun, 03 Sep 2017 19:42:27: 13000000 INFO @ Sun, 03 Sep 2017 19:42:31: 14000000 INFO @ Sun, 03 Sep 2017 19:42:31: 14000000 INFO @ Sun, 03 Sep 2017 19:42:32: 14000000 INFO @ Sun, 03 Sep 2017 19:42:36: 15000000 INFO @ Sun, 03 Sep 2017 19:42:36: 15000000 INFO @ Sun, 03 Sep 2017 19:42:37: 15000000 INFO @ Sun, 03 Sep 2017 19:42:41: 16000000 INFO @ Sun, 03 Sep 2017 19:42:42: 16000000 INFO @ Sun, 03 Sep 2017 19:42:42: 16000000 INFO @ Sun, 03 Sep 2017 19:42:46: 17000000 INFO @ Sun, 03 Sep 2017 19:42:47: 17000000 INFO @ Sun, 03 Sep 2017 19:42:47: 17000000 INFO @ Sun, 03 Sep 2017 19:42:51: 18000000 INFO @ Sun, 03 Sep 2017 19:42:52: 18000000 INFO @ Sun, 03 Sep 2017 19:42:52: 18000000 INFO @ Sun, 03 Sep 2017 19:42:56: 19000000 INFO @ Sun, 03 Sep 2017 19:42:57: 19000000 INFO @ Sun, 03 Sep 2017 19:42:57: 19000000 INFO @ Sun, 03 Sep 2017 19:43:01: 20000000 INFO @ Sun, 03 Sep 2017 19:43:02: 20000000 INFO @ Sun, 03 Sep 2017 19:43:02: 20000000 INFO @ Sun, 03 Sep 2017 19:43:06: 21000000 INFO @ Sun, 03 Sep 2017 19:43:07: 21000000 INFO @ Sun, 03 Sep 2017 19:43:08: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:43:08: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:43:08: #1 total tags in treatment: 9587230 INFO @ Sun, 03 Sep 2017 19:43:08: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:43:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Sep 2017 19:43:08: 21000000 INFO @ Sun, 03 Sep 2017 19:43:08: #1 tags after filtering in treatment: 4499936 INFO @ Sun, 03 Sep 2017 19:43:08: #1 Redundant rate of treatment: 0.53 INFO @ Sun, 03 Sep 2017 19:43:08: #1 finished! INFO @ Sun, 03 Sep 2017 19:43:08: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:43:08: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:43:08: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:43:08: 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 @ Sun, 03 Sep 2017 19:43:08: Process for pairing-model is terminated! cat: SRX2675881.20_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): 10 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675881.20_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 `SRX2675881.20_*.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 `SRX2675881.20_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 @ Sun, 03 Sep 2017 19:43:08: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:43:08: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:43:08: #1 total tags in treatment: 9587230 INFO @ Sun, 03 Sep 2017 19:43:08: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:43:08: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Sep 2017 19:43:08: #1 tags after filtering in treatment: 4499936 INFO @ Sun, 03 Sep 2017 19:43:08: #1 Redundant rate of treatment: 0.53 INFO @ Sun, 03 Sep 2017 19:43:08: #1 finished! INFO @ Sun, 03 Sep 2017 19:43:08: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:43:08: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:43:09: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:43:09: 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 @ Sun, 03 Sep 2017 19:43:09: Process for pairing-model is terminated! cat: SRX2675881.10_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): 10 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675881.10_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 `SRX2675881.10_*.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 `SRX2675881.10_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 @ Sun, 03 Sep 2017 19:43:09: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:43:09: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:43:09: #1 total tags in treatment: 9587230 INFO @ Sun, 03 Sep 2017 19:43:09: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:43:09: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Sep 2017 19:43:09: #1 tags after filtering in treatment: 4499936 INFO @ Sun, 03 Sep 2017 19:43:09: #1 Redundant rate of treatment: 0.53 INFO @ Sun, 03 Sep 2017 19:43:09: #1 finished! INFO @ Sun, 03 Sep 2017 19:43:09: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:43:09: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:43:09: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:43:09: 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 @ Sun, 03 Sep 2017 19:43:09: Process for pairing-model is terminated! cat: SRX2675881.05_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): 9 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675881.05_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 `SRX2675881.05_*.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 `SRX2675881.05_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。