Job ID = 9732095 sra ファイルのダウンロード中... Completed: 380513K bytes transferred in 11 seconds (280813K 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 16465184 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2675886/SRR5380662.sra Written 16465184 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: 00:07:18 16465184 reads; of these: 16465184 (100.00%) were paired; of these: 3694893 (22.44%) aligned concordantly 0 times 11705300 (71.09%) aligned concordantly exactly 1 time 1064991 (6.47%) aligned concordantly >1 times ---- 3694893 pairs aligned concordantly 0 times; of these: 858734 (23.24%) aligned discordantly 1 time ---- 2836159 pairs aligned 0 times concordantly or discordantly; of these: 5672318 mates make up the pairs; of these: 5025633 (88.60%) aligned 0 times 440458 (7.77%) aligned exactly 1 time 206227 (3.64%) aligned >1 times 84.74% overall alignment rate Time searching: 00:07:18 Overall time: 00:07:18 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] 1579734 / 13576090 = 0.1164 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 19:46:00: # Command line: callpeak -t SRX2675886.bam -f BAM -g 12100000 -n SRX2675886.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2675886.05 # format = BAM # ChIP-seq file = ['SRX2675886.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 19:46:00: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:46:00: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:46:00: # Command line: callpeak -t SRX2675886.bam -f BAM -g 12100000 -n SRX2675886.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2675886.20 # format = BAM # ChIP-seq file = ['SRX2675886.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 19:46:00: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:46:00: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:46:01: # Command line: callpeak -t SRX2675886.bam -f BAM -g 12100000 -n SRX2675886.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2675886.10 # format = BAM # ChIP-seq file = ['SRX2675886.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 19:46:01: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:46:01: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:46:05: 1000000 INFO @ Sun, 03 Sep 2017 19:46:05: 1000000 INFO @ Sun, 03 Sep 2017 19:46:06: 1000000 INFO @ Sun, 03 Sep 2017 19:46:10: 2000000 INFO @ Sun, 03 Sep 2017 19:46:10: 2000000 INFO @ Sun, 03 Sep 2017 19:46:11: 2000000 INFO @ Sun, 03 Sep 2017 19:46:15: 3000000 INFO @ Sun, 03 Sep 2017 19:46:15: 3000000 INFO @ Sun, 03 Sep 2017 19:46:16: 3000000 INFO @ Sun, 03 Sep 2017 19:46:20: 4000000 INFO @ Sun, 03 Sep 2017 19:46:20: 4000000 INFO @ Sun, 03 Sep 2017 19:46:21: 4000000 INFO @ Sun, 03 Sep 2017 19:46:25: 5000000 INFO @ Sun, 03 Sep 2017 19:46:25: 5000000 INFO @ Sun, 03 Sep 2017 19:46:26: 5000000 INFO @ Sun, 03 Sep 2017 19:46:29: 6000000 INFO @ Sun, 03 Sep 2017 19:46:30: 6000000 INFO @ Sun, 03 Sep 2017 19:46:31: 6000000 INFO @ Sun, 03 Sep 2017 19:46:34: 7000000 INFO @ Sun, 03 Sep 2017 19:46:34: 7000000 INFO @ Sun, 03 Sep 2017 19:46:36: 7000000 INFO @ Sun, 03 Sep 2017 19:46:39: 8000000 INFO @ Sun, 03 Sep 2017 19:46:39: 8000000 INFO @ Sun, 03 Sep 2017 19:46:41: 8000000 INFO @ Sun, 03 Sep 2017 19:46:44: 9000000 INFO @ Sun, 03 Sep 2017 19:46:44: 9000000 INFO @ Sun, 03 Sep 2017 19:46:46: 9000000 INFO @ Sun, 03 Sep 2017 19:46:49: 10000000 INFO @ Sun, 03 Sep 2017 19:46:49: 10000000 INFO @ Sun, 03 Sep 2017 19:46:50: 10000000 INFO @ Sun, 03 Sep 2017 19:46:54: 11000000 INFO @ Sun, 03 Sep 2017 19:46:54: 11000000 INFO @ Sun, 03 Sep 2017 19:46:55: 11000000 INFO @ Sun, 03 Sep 2017 19:46:58: 12000000 INFO @ Sun, 03 Sep 2017 19:46:59: 12000000 INFO @ Sun, 03 Sep 2017 19:47:00: 12000000 INFO @ Sun, 03 Sep 2017 19:47:03: 13000000 INFO @ Sun, 03 Sep 2017 19:47:04: 13000000 INFO @ Sun, 03 Sep 2017 19:47:05: 13000000 INFO @ Sun, 03 Sep 2017 19:47:08: 14000000 INFO @ Sun, 03 Sep 2017 19:47:09: 14000000 INFO @ Sun, 03 Sep 2017 19:47:10: 14000000 INFO @ Sun, 03 Sep 2017 19:47:13: 15000000 INFO @ Sun, 03 Sep 2017 19:47:14: 15000000 INFO @ Sun, 03 Sep 2017 19:47:15: 15000000 INFO @ Sun, 03 Sep 2017 19:47:18: 16000000 INFO @ Sun, 03 Sep 2017 19:47:19: 16000000 INFO @ Sun, 03 Sep 2017 19:47:21: 16000000 INFO @ Sun, 03 Sep 2017 19:47:24: 17000000 INFO @ Sun, 03 Sep 2017 19:47:24: 17000000 INFO @ Sun, 03 Sep 2017 19:47:26: 17000000 INFO @ Sun, 03 Sep 2017 19:47:29: 18000000 INFO @ Sun, 03 Sep 2017 19:47:29: 18000000 INFO @ Sun, 03 Sep 2017 19:47:31: 18000000 INFO @ Sun, 03 Sep 2017 19:47:33: 19000000 INFO @ Sun, 03 Sep 2017 19:47:34: 19000000 INFO @ Sun, 03 Sep 2017 19:47:36: 19000000 INFO @ Sun, 03 Sep 2017 19:47:39: 20000000 INFO @ Sun, 03 Sep 2017 19:47:40: 20000000 INFO @ Sun, 03 Sep 2017 19:47:41: 20000000 INFO @ Sun, 03 Sep 2017 19:47:44: 21000000 INFO @ Sun, 03 Sep 2017 19:47:45: 21000000 INFO @ Sun, 03 Sep 2017 19:47:46: 21000000 INFO @ Sun, 03 Sep 2017 19:47:49: 22000000 INFO @ Sun, 03 Sep 2017 19:47:50: 22000000 INFO @ Sun, 03 Sep 2017 19:47:51: 22000000 INFO @ Sun, 03 Sep 2017 19:47:54: 23000000 INFO @ Sun, 03 Sep 2017 19:47:55: 23000000 INFO @ Sun, 03 Sep 2017 19:47:56: 23000000 INFO @ Sun, 03 Sep 2017 19:47:59: 24000000 INFO @ Sun, 03 Sep 2017 19:48:00: 24000000 INFO @ Sun, 03 Sep 2017 19:48:02: 24000000 INFO @ Sun, 03 Sep 2017 19:48:03: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:48:03: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:48:03: #1 total tags in treatment: 11208791 INFO @ Sun, 03 Sep 2017 19:48:03: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:48:03: #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 19:48:03: #1 tags after filtering in treatment: 5078369 INFO @ Sun, 03 Sep 2017 19:48:03: #1 Redundant rate of treatment: 0.55 INFO @ Sun, 03 Sep 2017 19:48:03: #1 finished! INFO @ Sun, 03 Sep 2017 19:48:03: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:48:03: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:48:04: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:48:04: 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 19:48:04: Process for pairing-model is terminated! cat: SRX2675886.20_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): 5 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675886.20_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 `SRX2675886.20_*.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 `SRX2675886.20_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 19:48:04: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:48:04: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:48:04: #1 total tags in treatment: 11208791 INFO @ Sun, 03 Sep 2017 19:48:04: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:48:04: #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 19:48:05: #1 tags after filtering in treatment: 5078369 INFO @ Sun, 03 Sep 2017 19:48:05: #1 Redundant rate of treatment: 0.55 INFO @ Sun, 03 Sep 2017 19:48:05: #1 finished! INFO @ Sun, 03 Sep 2017 19:48:05: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:48:05: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:48:05: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:48:05: 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 19:48:05: Process for pairing-model is terminated! cat: SRX2675886.05_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): 5 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675886.05_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 `SRX2675886.05_*.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 `SRX2675886.05_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 @ Sun, 03 Sep 2017 19:48:06: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:48:06: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:48:06: #1 total tags in treatment: 11208791 INFO @ Sun, 03 Sep 2017 19:48:06: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:48:06: #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 19:48:06: #1 tags after filtering in treatment: 5078369 INFO @ Sun, 03 Sep 2017 19:48:06: #1 Redundant rate of treatment: 0.55 INFO @ Sun, 03 Sep 2017 19:48:06: #1 finished! INFO @ Sun, 03 Sep 2017 19:48:06: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:48:06: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:48:06: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:48:06: 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 19:48:06: Process for pairing-model is terminated! cat: SRX2675886.10_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): 7 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675886.10_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 `SRX2675886.10_*.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 `SRX2675886.10_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。