Job ID = 9732049 sra ファイルのダウンロード中... Completed: 228227K bytes transferred in 8 seconds (213112K 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 10381005 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2675851/SRR5380627.sra Written 10381005 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: 00:04:49 10381005 reads; of these: 10381005 (100.00%) were paired; of these: 2999578 (28.89%) aligned concordantly 0 times 6396780 (61.62%) aligned concordantly exactly 1 time 984647 (9.49%) aligned concordantly >1 times ---- 2999578 pairs aligned concordantly 0 times; of these: 397545 (13.25%) aligned discordantly 1 time ---- 2602033 pairs aligned 0 times concordantly or discordantly; of these: 5204066 mates make up the pairs; of these: 4761483 (91.50%) aligned 0 times 279889 (5.38%) aligned exactly 1 time 162694 (3.13%) aligned >1 times 77.07% overall alignment rate Time searching: 00:04:49 Overall time: 00:04:49 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_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] 968635 / 7699850 = 0.1258 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 19:19:09: # Command line: callpeak -t SRX2675851.bam -f BAM -g 12100000 -n SRX2675851.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2675851.20 # format = BAM # ChIP-seq file = ['SRX2675851.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 19:19:09: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:19:09: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:19:09: # Command line: callpeak -t SRX2675851.bam -f BAM -g 12100000 -n SRX2675851.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2675851.05 # format = BAM # ChIP-seq file = ['SRX2675851.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 19:19:09: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:19:09: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:19:09: # Command line: callpeak -t SRX2675851.bam -f BAM -g 12100000 -n SRX2675851.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2675851.10 # format = BAM # ChIP-seq file = ['SRX2675851.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 19:19:09: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:19:09: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:19:14: 1000000 INFO @ Sun, 03 Sep 2017 19:19:14: 1000000 INFO @ Sun, 03 Sep 2017 19:19:14: 1000000 INFO @ Sun, 03 Sep 2017 19:19:19: 2000000 INFO @ Sun, 03 Sep 2017 19:19:19: 2000000 INFO @ Sun, 03 Sep 2017 19:19:19: 2000000 INFO @ Sun, 03 Sep 2017 19:19:24: 3000000 INFO @ Sun, 03 Sep 2017 19:19:24: 3000000 INFO @ Sun, 03 Sep 2017 19:19:24: 3000000 INFO @ Sun, 03 Sep 2017 19:19:29: 4000000 INFO @ Sun, 03 Sep 2017 19:19:29: 4000000 INFO @ Sun, 03 Sep 2017 19:19:29: 4000000 INFO @ Sun, 03 Sep 2017 19:19:33: 5000000 INFO @ Sun, 03 Sep 2017 19:19:34: 5000000 INFO @ Sun, 03 Sep 2017 19:19:34: 5000000 INFO @ Sun, 03 Sep 2017 19:19:38: 6000000 INFO @ Sun, 03 Sep 2017 19:19:39: 6000000 INFO @ Sun, 03 Sep 2017 19:19:39: 6000000 INFO @ Sun, 03 Sep 2017 19:19:43: 7000000 INFO @ Sun, 03 Sep 2017 19:19:44: 7000000 INFO @ Sun, 03 Sep 2017 19:19:45: 7000000 INFO @ Sun, 03 Sep 2017 19:19:48: 8000000 INFO @ Sun, 03 Sep 2017 19:19:49: 8000000 INFO @ Sun, 03 Sep 2017 19:19:50: 8000000 INFO @ Sun, 03 Sep 2017 19:19:53: 9000000 INFO @ Sun, 03 Sep 2017 19:19:54: 9000000 INFO @ Sun, 03 Sep 2017 19:19:55: 9000000 INFO @ Sun, 03 Sep 2017 19:19:58: 10000000 INFO @ Sun, 03 Sep 2017 19:20:00: 10000000 INFO @ Sun, 03 Sep 2017 19:20:00: 10000000 INFO @ Sun, 03 Sep 2017 19:20:02: 11000000 INFO @ Sun, 03 Sep 2017 19:20:05: 11000000 INFO @ Sun, 03 Sep 2017 19:20:06: 11000000 INFO @ Sun, 03 Sep 2017 19:20:07: 12000000 INFO @ Sun, 03 Sep 2017 19:20:10: 12000000 INFO @ Sun, 03 Sep 2017 19:20:11: 12000000 INFO @ Sun, 03 Sep 2017 19:20:12: 13000000 INFO @ Sun, 03 Sep 2017 19:20:15: 13000000 INFO @ Sun, 03 Sep 2017 19:20:16: 13000000 INFO @ Sun, 03 Sep 2017 19:20:17: 14000000 INFO @ Sun, 03 Sep 2017 19:20:17: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:20:17: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:20:17: #1 total tags in treatment: 6418658 INFO @ Sun, 03 Sep 2017 19:20:17: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:20:17: #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 19:20:17: #1 tags after filtering in treatment: 3389726 INFO @ Sun, 03 Sep 2017 19:20:17: #1 Redundant rate of treatment: 0.47 INFO @ Sun, 03 Sep 2017 19:20:17: #1 finished! INFO @ Sun, 03 Sep 2017 19:20:17: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:20:17: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:20:18: #2 number of paired peaks: 31 WARNING @ Sun, 03 Sep 2017 19:20:18: Too few paired peaks (31) 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 19:20:18: Process for pairing-model is terminated! cat: SRX2675851.10_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675851.10_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 `SRX2675851.10_*.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 `SRX2675851.10_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 19:20:21: 14000000 INFO @ Sun, 03 Sep 2017 19:20:21: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:20:21: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:20:21: #1 total tags in treatment: 6418658 INFO @ Sun, 03 Sep 2017 19:20:21: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:20:21: #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 19:20:21: #1 tags after filtering in treatment: 3389726 INFO @ Sun, 03 Sep 2017 19:20:21: #1 Redundant rate of treatment: 0.47 INFO @ Sun, 03 Sep 2017 19:20:21: #1 finished! INFO @ Sun, 03 Sep 2017 19:20:21: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:20:21: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:20:21: #2 number of paired peaks: 31 WARNING @ Sun, 03 Sep 2017 19:20:21: Too few paired peaks (31) 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 19:20:21: Process for pairing-model is terminated! cat: SRX2675851.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675851.05_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 `SRX2675851.05_*.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 `SRX2675851.05_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 19:20:21: 14000000 INFO @ Sun, 03 Sep 2017 19:20:22: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:20:22: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:20:22: #1 total tags in treatment: 6418658 INFO @ Sun, 03 Sep 2017 19:20:22: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:20:22: #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 19:20:22: #1 tags after filtering in treatment: 3389726 INFO @ Sun, 03 Sep 2017 19:20:22: #1 Redundant rate of treatment: 0.47 INFO @ Sun, 03 Sep 2017 19:20:22: #1 finished! INFO @ Sun, 03 Sep 2017 19:20:22: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:20:22: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:20:22: #2 number of paired peaks: 31 WARNING @ Sun, 03 Sep 2017 19:20:22: Too few paired peaks (31) 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 19:20:22: Process for pairing-model is terminated! cat: SRX2675851.20_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): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675851.20_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 `SRX2675851.20_*.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 `SRX2675851.20_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。