Job ID = 9732062 sra ファイルのダウンロード中... Completed: 357218K bytes transferred in 10 seconds (281968K 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 16216973 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2675862/SRR5380639.sra Written 16216973 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: 00:08:15 16216973 reads; of these: 16216973 (100.00%) were paired; of these: 3631384 (22.39%) aligned concordantly 0 times 11563386 (71.30%) aligned concordantly exactly 1 time 1022203 (6.30%) aligned concordantly >1 times ---- 3631384 pairs aligned concordantly 0 times; of these: 1314351 (36.19%) aligned discordantly 1 time ---- 2317033 pairs aligned 0 times concordantly or discordantly; of these: 4634066 mates make up the pairs; of these: 3372668 (72.78%) aligned 0 times 906388 (19.56%) aligned exactly 1 time 355010 (7.66%) aligned >1 times 89.60% overall alignment rate Time searching: 00:08:15 Overall time: 00:08:15 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] 1321173 / 13247894 = 0.0997 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 19:36:08: # Command line: callpeak -t SRX2675862.bam -f BAM -g 12100000 -n SRX2675862.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2675862.05 # format = BAM # ChIP-seq file = ['SRX2675862.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 19:36:08: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:36:08: # Command line: callpeak -t SRX2675862.bam -f BAM -g 12100000 -n SRX2675862.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2675862.10 # format = BAM # ChIP-seq file = ['SRX2675862.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 19:36:08: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:36:08: # Command line: callpeak -t SRX2675862.bam -f BAM -g 12100000 -n SRX2675862.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2675862.20 # format = BAM # ChIP-seq file = ['SRX2675862.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 19:36:08: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:36:08: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:36:08: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:36:08: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:36:13: 1000000 INFO @ Sun, 03 Sep 2017 19:36:13: 1000000 INFO @ Sun, 03 Sep 2017 19:36:13: 1000000 INFO @ Sun, 03 Sep 2017 19:36:18: 2000000 INFO @ Sun, 03 Sep 2017 19:36:18: 2000000 INFO @ Sun, 03 Sep 2017 19:36:18: 2000000 INFO @ Sun, 03 Sep 2017 19:36:23: 3000000 INFO @ Sun, 03 Sep 2017 19:36:23: 3000000 INFO @ Sun, 03 Sep 2017 19:36:23: 3000000 INFO @ Sun, 03 Sep 2017 19:36:27: 4000000 INFO @ Sun, 03 Sep 2017 19:36:28: 4000000 INFO @ Sun, 03 Sep 2017 19:36:28: 4000000 INFO @ Sun, 03 Sep 2017 19:36:32: 5000000 INFO @ Sun, 03 Sep 2017 19:36:32: 5000000 INFO @ Sun, 03 Sep 2017 19:36:33: 5000000 INFO @ Sun, 03 Sep 2017 19:36:37: 6000000 INFO @ Sun, 03 Sep 2017 19:36:37: 6000000 INFO @ Sun, 03 Sep 2017 19:36:38: 6000000 INFO @ Sun, 03 Sep 2017 19:36:41: 7000000 INFO @ Sun, 03 Sep 2017 19:36:42: 7000000 INFO @ Sun, 03 Sep 2017 19:36:43: 7000000 INFO @ Sun, 03 Sep 2017 19:36:46: 8000000 INFO @ Sun, 03 Sep 2017 19:36:48: 8000000 INFO @ Sun, 03 Sep 2017 19:36:48: 8000000 INFO @ Sun, 03 Sep 2017 19:36:51: 9000000 INFO @ Sun, 03 Sep 2017 19:36:53: 9000000 INFO @ Sun, 03 Sep 2017 19:36:54: 9000000 INFO @ Sun, 03 Sep 2017 19:36:55: 10000000 INFO @ Sun, 03 Sep 2017 19:36:58: 10000000 INFO @ Sun, 03 Sep 2017 19:36:59: 10000000 INFO @ Sun, 03 Sep 2017 19:37:00: 11000000 INFO @ Sun, 03 Sep 2017 19:37:03: 11000000 INFO @ Sun, 03 Sep 2017 19:37:04: 11000000 INFO @ Sun, 03 Sep 2017 19:37:04: 12000000 INFO @ Sun, 03 Sep 2017 19:37:08: 12000000 INFO @ Sun, 03 Sep 2017 19:37:09: 13000000 INFO @ Sun, 03 Sep 2017 19:37:09: 12000000 INFO @ Sun, 03 Sep 2017 19:37:13: 13000000 INFO @ Sun, 03 Sep 2017 19:37:14: 14000000 INFO @ Sun, 03 Sep 2017 19:37:15: 13000000 INFO @ Sun, 03 Sep 2017 19:37:18: 14000000 INFO @ Sun, 03 Sep 2017 19:37:18: 15000000 INFO @ Sun, 03 Sep 2017 19:37:20: 14000000 INFO @ Sun, 03 Sep 2017 19:37:23: 16000000 INFO @ Sun, 03 Sep 2017 19:37:23: 15000000 INFO @ Sun, 03 Sep 2017 19:37:25: 15000000 INFO @ Sun, 03 Sep 2017 19:37:28: 17000000 INFO @ Sun, 03 Sep 2017 19:37:28: 16000000 INFO @ Sun, 03 Sep 2017 19:37:31: 16000000 INFO @ Sun, 03 Sep 2017 19:37:32: 18000000 INFO @ Sun, 03 Sep 2017 19:37:33: 17000000 INFO @ Sun, 03 Sep 2017 19:37:36: 17000000 INFO @ Sun, 03 Sep 2017 19:37:37: 19000000 INFO @ Sun, 03 Sep 2017 19:37:39: 18000000 INFO @ Sun, 03 Sep 2017 19:37:41: 18000000 INFO @ Sun, 03 Sep 2017 19:37:41: 20000000 INFO @ Sun, 03 Sep 2017 19:37:44: 19000000 INFO @ Sun, 03 Sep 2017 19:37:46: 21000000 INFO @ Sun, 03 Sep 2017 19:37:46: 19000000 INFO @ Sun, 03 Sep 2017 19:37:49: 20000000 INFO @ Sun, 03 Sep 2017 19:37:51: 22000000 INFO @ Sun, 03 Sep 2017 19:37:52: 20000000 INFO @ Sun, 03 Sep 2017 19:37:54: 21000000 INFO @ Sun, 03 Sep 2017 19:37:55: 23000000 INFO @ Sun, 03 Sep 2017 19:37:57: 21000000 INFO @ Sun, 03 Sep 2017 19:37:59: 22000000 INFO @ Sun, 03 Sep 2017 19:38:00: 24000000 INFO @ Sun, 03 Sep 2017 19:38:02: 22000000 INFO @ Sun, 03 Sep 2017 19:38:04: 23000000 INFO @ Sun, 03 Sep 2017 19:38:04: 25000000 INFO @ Sun, 03 Sep 2017 19:38:07: 23000000 INFO @ Sun, 03 Sep 2017 19:38:09: 26000000 INFO @ Sun, 03 Sep 2017 19:38:09: 24000000 INFO @ Sun, 03 Sep 2017 19:38:11: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:38:11: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:38:11: #1 total tags in treatment: 11271754 INFO @ Sun, 03 Sep 2017 19:38:11: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:38:11: #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 19:38:11: #1 tags after filtering in treatment: 4955320 INFO @ Sun, 03 Sep 2017 19:38:11: #1 Redundant rate of treatment: 0.56 INFO @ Sun, 03 Sep 2017 19:38:11: #1 finished! INFO @ Sun, 03 Sep 2017 19:38:11: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:38:11: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:38:12: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:38:12: 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 19:38:12: Process for pairing-model is terminated! cat: SRX2675862.05_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 `SRX2675862.05_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 `SRX2675862.05_*.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 `SRX2675862.05_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 19:38:12: 24000000 INFO @ Sun, 03 Sep 2017 19:38:14: 25000000 INFO @ Sun, 03 Sep 2017 19:38:18: 25000000 INFO @ Sun, 03 Sep 2017 19:38:19: 26000000 INFO @ Sun, 03 Sep 2017 19:38:21: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:38:21: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:38:21: #1 total tags in treatment: 11271754 INFO @ Sun, 03 Sep 2017 19:38:21: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:38:21: #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 19:38:21: #1 tags after filtering in treatment: 4955320 INFO @ Sun, 03 Sep 2017 19:38:21: #1 Redundant rate of treatment: 0.56 INFO @ Sun, 03 Sep 2017 19:38:21: #1 finished! INFO @ Sun, 03 Sep 2017 19:38:21: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:38:21: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:38:22: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:38:22: 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 19:38:22: Process for pairing-model is terminated! cat: SRX2675862.20_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675862.20_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 `SRX2675862.20_*.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 `SRX2675862.20_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 19:38:22: 26000000 INFO @ Sun, 03 Sep 2017 19:38:25: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:38:25: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:38:25: #1 total tags in treatment: 11271754 INFO @ Sun, 03 Sep 2017 19:38:25: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:38:25: #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 19:38:25: #1 tags after filtering in treatment: 4955320 INFO @ Sun, 03 Sep 2017 19:38:25: #1 Redundant rate of treatment: 0.56 INFO @ Sun, 03 Sep 2017 19:38:25: #1 finished! INFO @ Sun, 03 Sep 2017 19:38:25: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:38:25: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:38:25: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:38:25: 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 19:38:25: Process for pairing-model is terminated! cat: SRX2675862.10_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): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675862.10_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 `SRX2675862.10_*.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 `SRX2675862.10_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。