Job ID = 9732065 sra ファイルのダウンロード中... Completed: 377985K bytes transferred in 13 seconds (234890K 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 17246006 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2675866/SRR5380642.sra Written 17246006 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: 00:07:05 17246006 reads; of these: 17246006 (100.00%) were paired; of these: 5377501 (31.18%) aligned concordantly 0 times 10560053 (61.23%) aligned concordantly exactly 1 time 1308452 (7.59%) aligned concordantly >1 times ---- 5377501 pairs aligned concordantly 0 times; of these: 629694 (11.71%) aligned discordantly 1 time ---- 4747807 pairs aligned 0 times concordantly or discordantly; of these: 9495614 mates make up the pairs; of these: 8937148 (94.12%) aligned 0 times 363799 (3.83%) aligned exactly 1 time 194667 (2.05%) aligned >1 times 74.09% overall alignment rate Time searching: 00:07:05 Overall time: 00:07:05 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] 1596696 / 12397816 = 0.1288 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 19:35:24: # Command line: callpeak -t SRX2675866.bam -f BAM -g 12100000 -n SRX2675866.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2675866.05 # format = BAM # ChIP-seq file = ['SRX2675866.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 19:35:24: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:35:24: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:35:24: # Command line: callpeak -t SRX2675866.bam -f BAM -g 12100000 -n SRX2675866.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2675866.10 # format = BAM # ChIP-seq file = ['SRX2675866.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 19:35:24: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:35:24: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:35:24: # Command line: callpeak -t SRX2675866.bam -f BAM -g 12100000 -n SRX2675866.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2675866.20 # format = BAM # ChIP-seq file = ['SRX2675866.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 19:35:24: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:35:24: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:35:28: 1000000 INFO @ Sun, 03 Sep 2017 19:35:28: 1000000 INFO @ Sun, 03 Sep 2017 19:35:28: 1000000 INFO @ Sun, 03 Sep 2017 19:35:33: 2000000 INFO @ Sun, 03 Sep 2017 19:35:33: 2000000 INFO @ Sun, 03 Sep 2017 19:35:33: 2000000 INFO @ Sun, 03 Sep 2017 19:35:38: 3000000 INFO @ Sun, 03 Sep 2017 19:35:38: 3000000 INFO @ Sun, 03 Sep 2017 19:35:38: 3000000 INFO @ Sun, 03 Sep 2017 19:35:42: 4000000 INFO @ Sun, 03 Sep 2017 19:35:42: 4000000 INFO @ Sun, 03 Sep 2017 19:35:42: 4000000 INFO @ Sun, 03 Sep 2017 19:35:47: 5000000 INFO @ Sun, 03 Sep 2017 19:35:47: 5000000 INFO @ Sun, 03 Sep 2017 19:35:47: 5000000 INFO @ Sun, 03 Sep 2017 19:35:51: 6000000 INFO @ Sun, 03 Sep 2017 19:35:51: 6000000 INFO @ Sun, 03 Sep 2017 19:35:52: 6000000 INFO @ Sun, 03 Sep 2017 19:35:56: 7000000 INFO @ Sun, 03 Sep 2017 19:35:56: 7000000 INFO @ Sun, 03 Sep 2017 19:35:56: 7000000 INFO @ Sun, 03 Sep 2017 19:36:00: 8000000 INFO @ Sun, 03 Sep 2017 19:36:01: 8000000 INFO @ Sun, 03 Sep 2017 19:36:01: 8000000 INFO @ Sun, 03 Sep 2017 19:36:05: 9000000 INFO @ Sun, 03 Sep 2017 19:36:05: 9000000 INFO @ Sun, 03 Sep 2017 19:36:06: 9000000 INFO @ Sun, 03 Sep 2017 19:36:10: 10000000 INFO @ Sun, 03 Sep 2017 19:36:10: 10000000 INFO @ Sun, 03 Sep 2017 19:36:10: 10000000 INFO @ Sun, 03 Sep 2017 19:36:14: 11000000 INFO @ Sun, 03 Sep 2017 19:36:15: 11000000 INFO @ Sun, 03 Sep 2017 19:36:15: 11000000 INFO @ Sun, 03 Sep 2017 19:36:19: 12000000 INFO @ Sun, 03 Sep 2017 19:36:19: 12000000 INFO @ Sun, 03 Sep 2017 19:36:20: 12000000 INFO @ Sun, 03 Sep 2017 19:36:23: 13000000 INFO @ Sun, 03 Sep 2017 19:36:24: 13000000 INFO @ Sun, 03 Sep 2017 19:36:24: 13000000 INFO @ Sun, 03 Sep 2017 19:36:28: 14000000 INFO @ Sun, 03 Sep 2017 19:36:29: 14000000 INFO @ Sun, 03 Sep 2017 19:36:29: 14000000 INFO @ Sun, 03 Sep 2017 19:36:32: 15000000 INFO @ Sun, 03 Sep 2017 19:36:33: 15000000 INFO @ Sun, 03 Sep 2017 19:36:34: 15000000 INFO @ Sun, 03 Sep 2017 19:36:37: 16000000 INFO @ Sun, 03 Sep 2017 19:36:38: 16000000 INFO @ Sun, 03 Sep 2017 19:36:39: 16000000 INFO @ Sun, 03 Sep 2017 19:36:41: 17000000 INFO @ Sun, 03 Sep 2017 19:36:43: 17000000 INFO @ Sun, 03 Sep 2017 19:36:43: 17000000 INFO @ Sun, 03 Sep 2017 19:36:46: 18000000 INFO @ Sun, 03 Sep 2017 19:36:47: 18000000 INFO @ Sun, 03 Sep 2017 19:36:48: 18000000 INFO @ Sun, 03 Sep 2017 19:36:50: 19000000 INFO @ Sun, 03 Sep 2017 19:36:52: 19000000 INFO @ Sun, 03 Sep 2017 19:36:53: 19000000 INFO @ Sun, 03 Sep 2017 19:36:55: 20000000 INFO @ Sun, 03 Sep 2017 19:36:57: 20000000 INFO @ Sun, 03 Sep 2017 19:36:58: 20000000 INFO @ Sun, 03 Sep 2017 19:36:59: 21000000 INFO @ Sun, 03 Sep 2017 19:37:01: 21000000 INFO @ Sun, 03 Sep 2017 19:37:03: 21000000 INFO @ Sun, 03 Sep 2017 19:37:04: 22000000 INFO @ Sun, 03 Sep 2017 19:37:05: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:37:05: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:37:05: #1 total tags in treatment: 10282154 INFO @ Sun, 03 Sep 2017 19:37:05: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:37:05: #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 19:37:06: #1 tags after filtering in treatment: 4866096 INFO @ Sun, 03 Sep 2017 19:37:06: #1 Redundant rate of treatment: 0.53 INFO @ Sun, 03 Sep 2017 19:37:06: #1 finished! INFO @ Sun, 03 Sep 2017 19:37:06: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:37:06: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:37:06: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:37:06: 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 19:37:06: Process for pairing-model is terminated! cat: SRX2675866.20_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675866.20_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 `SRX2675866.20_*.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 `SRX2675866.20_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 19:37:06: 22000000 INFO @ Sun, 03 Sep 2017 19:37:07: 22000000 INFO @ Sun, 03 Sep 2017 19:37:08: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:37:08: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:37:08: #1 total tags in treatment: 10282154 INFO @ Sun, 03 Sep 2017 19:37:08: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:37:08: #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 19:37:08: #1 tags after filtering in treatment: 4866096 INFO @ Sun, 03 Sep 2017 19:37:08: #1 Redundant rate of treatment: 0.53 INFO @ Sun, 03 Sep 2017 19:37:08: #1 finished! INFO @ Sun, 03 Sep 2017 19:37:08: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:37:08: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:37:08: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:37:08: 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 19:37:08: Process for pairing-model is terminated! cat: SRX2675866.05_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 `SRX2675866.05_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 `SRX2675866.05_*.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 `SRX2675866.05_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 19:37:09: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:37:09: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:37:09: #1 total tags in treatment: 10282154 INFO @ Sun, 03 Sep 2017 19:37:09: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:37:09: #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 19:37:09: #1 tags after filtering in treatment: 4866096 INFO @ Sun, 03 Sep 2017 19:37:09: #1 Redundant rate of treatment: 0.53 INFO @ Sun, 03 Sep 2017 19:37:09: #1 finished! INFO @ Sun, 03 Sep 2017 19:37:09: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:37:09: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:37:10: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:37:10: 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 19:37:10: Process for pairing-model is terminated! cat: SRX2675866.10_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675866.10_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 `SRX2675866.10_*.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 `SRX2675866.10_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。