Job ID = 9162408 sra ファイルのダウンロード中... Completed: 1427664K bytes transferred in 20 seconds (567930K 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 9600696 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2457688/SRR5138803.sra Written 9600696 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: 00:12:18 9600696 reads; of these: 9600696 (100.00%) were paired; of these: 220930 (2.30%) aligned concordantly 0 times 8459982 (88.12%) aligned concordantly exactly 1 time 919784 (9.58%) aligned concordantly >1 times ---- 220930 pairs aligned concordantly 0 times; of these: 63653 (28.81%) aligned discordantly 1 time ---- 157277 pairs aligned 0 times concordantly or discordantly; of these: 314554 mates make up the pairs; of these: 210542 (66.93%) aligned 0 times 75315 (23.94%) aligned exactly 1 time 28697 (9.12%) aligned >1 times 98.90% overall alignment rate Time searching: 00:12:18 Overall time: 00:12:18 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] 843815 / 9420020 = 0.0896 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 @ Wed, 28 Jun 2017 08:02:44: # Command line: callpeak -t SRX2457688.bam -f BAM -g 12100000 -n SRX2457688.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2457688.10 # format = BAM # ChIP-seq file = ['SRX2457688.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 @ Wed, 28 Jun 2017 08:02:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:02:44: # Command line: callpeak -t SRX2457688.bam -f BAM -g 12100000 -n SRX2457688.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2457688.20 # format = BAM # ChIP-seq file = ['SRX2457688.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 @ Wed, 28 Jun 2017 08:02:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:02:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:02:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:02:44: # Command line: callpeak -t SRX2457688.bam -f BAM -g 12100000 -n SRX2457688.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2457688.05 # format = BAM # ChIP-seq file = ['SRX2457688.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 @ Wed, 28 Jun 2017 08:02:44: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:02:44: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:02:54: 1000000 INFO @ Wed, 28 Jun 2017 08:02:54: 1000000 INFO @ Wed, 28 Jun 2017 08:02:55: 1000000 INFO @ Wed, 28 Jun 2017 08:03:04: 2000000 INFO @ Wed, 28 Jun 2017 08:03:04: 2000000 INFO @ Wed, 28 Jun 2017 08:03:05: 2000000 INFO @ Wed, 28 Jun 2017 08:03:14: 3000000 INFO @ Wed, 28 Jun 2017 08:03:14: 3000000 INFO @ Wed, 28 Jun 2017 08:03:16: 3000000 INFO @ Wed, 28 Jun 2017 08:03:23: 4000000 INFO @ Wed, 28 Jun 2017 08:03:23: 4000000 INFO @ Wed, 28 Jun 2017 08:03:24: 4000000 INFO @ Wed, 28 Jun 2017 08:03:31: 5000000 INFO @ Wed, 28 Jun 2017 08:03:31: 5000000 INFO @ Wed, 28 Jun 2017 08:03:32: 5000000 INFO @ Wed, 28 Jun 2017 08:03:40: 6000000 INFO @ Wed, 28 Jun 2017 08:03:40: 6000000 INFO @ Wed, 28 Jun 2017 08:03:40: 6000000 INFO @ Wed, 28 Jun 2017 08:03:49: 7000000 INFO @ Wed, 28 Jun 2017 08:03:49: 7000000 INFO @ Wed, 28 Jun 2017 08:03:49: 7000000 INFO @ Wed, 28 Jun 2017 08:03:57: 8000000 INFO @ Wed, 28 Jun 2017 08:03:57: 8000000 INFO @ Wed, 28 Jun 2017 08:03:57: 8000000 INFO @ Wed, 28 Jun 2017 08:04:06: 9000000 INFO @ Wed, 28 Jun 2017 08:04:06: 9000000 INFO @ Wed, 28 Jun 2017 08:04:06: 9000000 INFO @ Wed, 28 Jun 2017 08:04:14: 10000000 INFO @ Wed, 28 Jun 2017 08:04:15: 10000000 INFO @ Wed, 28 Jun 2017 08:04:15: 10000000 INFO @ Wed, 28 Jun 2017 08:04:22: 11000000 INFO @ Wed, 28 Jun 2017 08:04:23: 11000000 INFO @ Wed, 28 Jun 2017 08:04:23: 11000000 INFO @ Wed, 28 Jun 2017 08:04:30: 12000000 INFO @ Wed, 28 Jun 2017 08:04:32: 12000000 INFO @ Wed, 28 Jun 2017 08:04:32: 12000000 INFO @ Wed, 28 Jun 2017 08:04:39: 13000000 INFO @ Wed, 28 Jun 2017 08:04:41: 13000000 INFO @ Wed, 28 Jun 2017 08:04:41: 13000000 INFO @ Wed, 28 Jun 2017 08:04:47: 14000000 INFO @ Wed, 28 Jun 2017 08:04:49: 14000000 INFO @ Wed, 28 Jun 2017 08:04:49: 14000000 INFO @ Wed, 28 Jun 2017 08:04:55: 15000000 INFO @ Wed, 28 Jun 2017 08:04:58: 15000000 INFO @ Wed, 28 Jun 2017 08:04:58: 15000000 INFO @ Wed, 28 Jun 2017 08:05:04: 16000000 INFO @ Wed, 28 Jun 2017 08:05:06: 16000000 INFO @ Wed, 28 Jun 2017 08:05:06: 16000000 INFO @ Wed, 28 Jun 2017 08:05:12: 17000000 INFO @ Wed, 28 Jun 2017 08:05:14: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:05:14: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:05:14: #1 total tags in treatment: 8536339 INFO @ Wed, 28 Jun 2017 08:05:14: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:05:14: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 08:05:15: #1 tags after filtering in treatment: 4672976 INFO @ Wed, 28 Jun 2017 08:05:15: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 28 Jun 2017 08:05:15: #1 finished! INFO @ Wed, 28 Jun 2017 08:05:15: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:05:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:05:15: 17000000 INFO @ Wed, 28 Jun 2017 08:05:15: 17000000 INFO @ Wed, 28 Jun 2017 08:05:15: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:05:15: 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 @ Wed, 28 Jun 2017 08:05:15: Process for pairing-model is terminated! cat: SRX2457688.10_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 `SRX2457688.10_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 `SRX2457688.10_*.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 `SRX2457688.10_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 @ Wed, 28 Jun 2017 08:05:17: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:05:17: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:05:17: #1 total tags in treatment: 8536339 INFO @ Wed, 28 Jun 2017 08:05:17: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:05:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 08:05:17: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:05:17: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:05:17: #1 total tags in treatment: 8536339 INFO @ Wed, 28 Jun 2017 08:05:17: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:05:17: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 08:05:18: #1 tags after filtering in treatment: 4672976 INFO @ Wed, 28 Jun 2017 08:05:18: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 28 Jun 2017 08:05:18: #1 finished! INFO @ Wed, 28 Jun 2017 08:05:18: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:05:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:05:18: #1 tags after filtering in treatment: 4672976 INFO @ Wed, 28 Jun 2017 08:05:18: #1 Redundant rate of treatment: 0.45 INFO @ Wed, 28 Jun 2017 08:05:18: #1 finished! INFO @ Wed, 28 Jun 2017 08:05:18: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:05:18: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:05:18: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:05:18: 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 @ Wed, 28 Jun 2017 08:05:18: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 08:05:18: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:05:18: 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 @ Wed, 28 Jun 2017 08:05:18: Process for pairing-model is terminated! cat: SRX2457688.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX2457688.20_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 `SRX2457688.05_model.r'pass1 - making usageList (0 chroms): そのようなファイルやディレクトリはありません: 1 millis rm: cannot remove `SRX2457688.05_*.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 `SRX2457688.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません needLargeMem: trying to allocate 0 bytes (limit: 17179869184) CompletedMACS2peakCalling rm: cannot remove `SRX2457688.20_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 `SRX2457688.20_*.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 `SRX2457688.20_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。