Job ID = 9732045 sra ファイルのダウンロード中... Completed: 282172K bytes transferred in 11 seconds (203808K 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 12834735 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2675849/SRR5380625.sra Written 12834735 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: 00:05:52 12834735 reads; of these: 12834735 (100.00%) were paired; of these: 2672580 (20.82%) aligned concordantly 0 times 9281536 (72.32%) aligned concordantly exactly 1 time 880619 (6.86%) aligned concordantly >1 times ---- 2672580 pairs aligned concordantly 0 times; of these: 772708 (28.91%) aligned discordantly 1 time ---- 1899872 pairs aligned 0 times concordantly or discordantly; of these: 3799744 mates make up the pairs; of these: 3252894 (85.61%) aligned 0 times 361157 (9.50%) aligned exactly 1 time 185693 (4.89%) aligned >1 times 87.33% overall alignment rate Time searching: 00:05:52 Overall time: 00:05:52 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] 1189233 / 10815259 = 0.1100 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 19:21:21: # Command line: callpeak -t SRX2675849.bam -f BAM -g 12100000 -n SRX2675849.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2675849.10 # format = BAM # ChIP-seq file = ['SRX2675849.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 19:21:21: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:21:21: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:21:21: # Command line: callpeak -t SRX2675849.bam -f BAM -g 12100000 -n SRX2675849.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2675849.20 # format = BAM # ChIP-seq file = ['SRX2675849.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 19:21:21: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:21:21: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:21:21: # Command line: callpeak -t SRX2675849.bam -f BAM -g 12100000 -n SRX2675849.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2675849.05 # format = BAM # ChIP-seq file = ['SRX2675849.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 19:21:21: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:21:21: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:21:26: 1000000 INFO @ Sun, 03 Sep 2017 19:21:26: 1000000 INFO @ Sun, 03 Sep 2017 19:21:26: 1000000 INFO @ Sun, 03 Sep 2017 19:21:30: 2000000 INFO @ Sun, 03 Sep 2017 19:21:31: 2000000 INFO @ Sun, 03 Sep 2017 19:21:31: 2000000 INFO @ Sun, 03 Sep 2017 19:21:35: 3000000 INFO @ Sun, 03 Sep 2017 19:21:35: 3000000 INFO @ Sun, 03 Sep 2017 19:21:35: 3000000 INFO @ Sun, 03 Sep 2017 19:21:40: 4000000 INFO @ Sun, 03 Sep 2017 19:21:40: 4000000 INFO @ Sun, 03 Sep 2017 19:21:40: 4000000 INFO @ Sun, 03 Sep 2017 19:21:44: 5000000 INFO @ Sun, 03 Sep 2017 19:21:44: 5000000 INFO @ Sun, 03 Sep 2017 19:21:44: 5000000 INFO @ Sun, 03 Sep 2017 19:21:49: 6000000 INFO @ Sun, 03 Sep 2017 19:21:49: 6000000 INFO @ Sun, 03 Sep 2017 19:21:49: 6000000 INFO @ Sun, 03 Sep 2017 19:21:53: 7000000 INFO @ Sun, 03 Sep 2017 19:21:53: 7000000 INFO @ Sun, 03 Sep 2017 19:21:53: 7000000 INFO @ Sun, 03 Sep 2017 19:21:58: 8000000 INFO @ Sun, 03 Sep 2017 19:21:58: 8000000 INFO @ Sun, 03 Sep 2017 19:21:58: 8000000 INFO @ Sun, 03 Sep 2017 19:22:02: 9000000 INFO @ Sun, 03 Sep 2017 19:22:03: 9000000 INFO @ Sun, 03 Sep 2017 19:22:03: 9000000 INFO @ Sun, 03 Sep 2017 19:22:07: 10000000 INFO @ Sun, 03 Sep 2017 19:22:07: 10000000 INFO @ Sun, 03 Sep 2017 19:22:07: 10000000 INFO @ Sun, 03 Sep 2017 19:22:12: 11000000 INFO @ Sun, 03 Sep 2017 19:22:12: 11000000 INFO @ Sun, 03 Sep 2017 19:22:12: 11000000 INFO @ Sun, 03 Sep 2017 19:22:16: 12000000 INFO @ Sun, 03 Sep 2017 19:22:16: 12000000 INFO @ Sun, 03 Sep 2017 19:22:16: 12000000 INFO @ Sun, 03 Sep 2017 19:22:21: 13000000 INFO @ Sun, 03 Sep 2017 19:22:21: 13000000 INFO @ Sun, 03 Sep 2017 19:22:21: 13000000 INFO @ Sun, 03 Sep 2017 19:22:25: 14000000 INFO @ Sun, 03 Sep 2017 19:22:25: 14000000 INFO @ Sun, 03 Sep 2017 19:22:26: 14000000 INFO @ Sun, 03 Sep 2017 19:22:30: 15000000 INFO @ Sun, 03 Sep 2017 19:22:30: 15000000 INFO @ Sun, 03 Sep 2017 19:22:30: 15000000 INFO @ Sun, 03 Sep 2017 19:22:34: 16000000 INFO @ Sun, 03 Sep 2017 19:22:35: 16000000 INFO @ Sun, 03 Sep 2017 19:22:35: 16000000 INFO @ Sun, 03 Sep 2017 19:22:39: 17000000 INFO @ Sun, 03 Sep 2017 19:22:39: 17000000 INFO @ Sun, 03 Sep 2017 19:22:40: 17000000 INFO @ Sun, 03 Sep 2017 19:22:43: 18000000 INFO @ Sun, 03 Sep 2017 19:22:44: 18000000 INFO @ Sun, 03 Sep 2017 19:22:44: 18000000 INFO @ Sun, 03 Sep 2017 19:22:48: 19000000 INFO @ Sun, 03 Sep 2017 19:22:48: 19000000 INFO @ Sun, 03 Sep 2017 19:22:49: 19000000 INFO @ Sun, 03 Sep 2017 19:22:53: 20000000 INFO @ Sun, 03 Sep 2017 19:22:53: 20000000 INFO @ Sun, 03 Sep 2017 19:22:53: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:22:53: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:22:53: #1 total tags in treatment: 8981928 INFO @ Sun, 03 Sep 2017 19:22:53: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:22:53: #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 19:22:53: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:22:53: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:22:53: #1 total tags in treatment: 8981928 INFO @ Sun, 03 Sep 2017 19:22:53: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:22:53: #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 19:22:53: #1 tags after filtering in treatment: 4253888 INFO @ Sun, 03 Sep 2017 19:22:53: #1 Redundant rate of treatment: 0.53 INFO @ Sun, 03 Sep 2017 19:22:53: #1 finished! INFO @ Sun, 03 Sep 2017 19:22:53: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:22:53: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:22:53: #1 tags after filtering in treatment: 4253888 INFO @ Sun, 03 Sep 2017 19:22:53: #1 Redundant rate of treatment: 0.53 INFO @ Sun, 03 Sep 2017 19:22:53: #1 finished! INFO @ Sun, 03 Sep 2017 19:22:53: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:22:53: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:22:54: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:22:54: 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 19:22:54: Process for pairing-model is terminated! cat: SRX2675849.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Sun, 03 Sep 2017 19:22:54: 20000000 pass1 - making usageList (0 chroms): 15 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675849.20_model.r': そのようなファイルやディレクトリはありません INFO @ Sun, 03 Sep 2017 19:22:54: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:22:54: 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 19:22:54: Process for pairing-model is terminated! rm: cannot remove `SRX2675849.20_*.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 `SRX2675849.20_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 cat: SRX2675849.10_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 `SRX2675849.10_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 `SRX2675849.10_*.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 `SRX2675849.10_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 19:22:54: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:22:54: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:22:54: #1 total tags in treatment: 8981928 INFO @ Sun, 03 Sep 2017 19:22:54: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:22:54: #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 19:22:54: #1 tags after filtering in treatment: 4253888 INFO @ Sun, 03 Sep 2017 19:22:54: #1 Redundant rate of treatment: 0.53 INFO @ Sun, 03 Sep 2017 19:22:54: #1 finished! INFO @ Sun, 03 Sep 2017 19:22:54: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:22:54: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:22:54: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:22:54: 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 19:22:54: Process for pairing-model is terminated! cat: SRX2675849.05_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): 7 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675849.05_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 `SRX2675849.05_*.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 `SRX2675849.05_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。