Job ID = 9162417 sra ファイルのダウンロード中... Completed: 742812K bytes transferred in 11 seconds (542979K 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 8663270 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2457697/SRR5138812.sra Written 8663270 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: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:10:09 8663270 reads; of these: 8663270 (100.00%) were paired; of these: 622143 (7.18%) aligned concordantly 0 times 7526918 (86.88%) aligned concordantly exactly 1 time 514209 (5.94%) aligned concordantly >1 times ---- 622143 pairs aligned concordantly 0 times; of these: 330548 (53.13%) aligned discordantly 1 time ---- 291595 pairs aligned 0 times concordantly or discordantly; of these: 583190 mates make up the pairs; of these: 458057 (78.54%) aligned 0 times 76572 (13.13%) aligned exactly 1 time 48561 (8.33%) aligned >1 times 97.36% overall alignment rate Time searching: 00:10:10 Overall time: 00:10:10 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] 707436 / 8315547 = 0.0851 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 07:59:39: # Command line: callpeak -t SRX2457697.bam -f BAM -g 12100000 -n SRX2457697.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2457697.05 # format = BAM # ChIP-seq file = ['SRX2457697.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 07:59:39: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:59:39: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:59:39: # Command line: callpeak -t SRX2457697.bam -f BAM -g 12100000 -n SRX2457697.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2457697.10 # format = BAM # ChIP-seq file = ['SRX2457697.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 07:59:39: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:59:39: # Command line: callpeak -t SRX2457697.bam -f BAM -g 12100000 -n SRX2457697.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2457697.20 # format = BAM # ChIP-seq file = ['SRX2457697.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 07:59:39: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:59:39: #1 read tag files... INFO @ Wed, 28 Jun 2017 07:59:39: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 07:59:47: 1000000 INFO @ Wed, 28 Jun 2017 07:59:49: 1000000 INFO @ Wed, 28 Jun 2017 07:59:49: 1000000 INFO @ Wed, 28 Jun 2017 07:59:55: 2000000 INFO @ Wed, 28 Jun 2017 07:59:59: 2000000 INFO @ Wed, 28 Jun 2017 07:59:59: 2000000 INFO @ Wed, 28 Jun 2017 08:00:03: 3000000 INFO @ Wed, 28 Jun 2017 08:00:09: 3000000 INFO @ Wed, 28 Jun 2017 08:00:09: 3000000 INFO @ Wed, 28 Jun 2017 08:00:10: 4000000 INFO @ Wed, 28 Jun 2017 08:00:19: 4000000 INFO @ Wed, 28 Jun 2017 08:00:19: 4000000 INFO @ Wed, 28 Jun 2017 08:00:20: 5000000 INFO @ Wed, 28 Jun 2017 08:00:29: 6000000 INFO @ Wed, 28 Jun 2017 08:00:29: 5000000 INFO @ Wed, 28 Jun 2017 08:00:29: 5000000 INFO @ Wed, 28 Jun 2017 08:00:38: 7000000 INFO @ Wed, 28 Jun 2017 08:00:40: 6000000 INFO @ Wed, 28 Jun 2017 08:00:40: 6000000 INFO @ Wed, 28 Jun 2017 08:00:47: 8000000 INFO @ Wed, 28 Jun 2017 08:00:50: 7000000 INFO @ Wed, 28 Jun 2017 08:00:50: 7000000 INFO @ Wed, 28 Jun 2017 08:00:56: 9000000 INFO @ Wed, 28 Jun 2017 08:01:00: 8000000 INFO @ Wed, 28 Jun 2017 08:01:00: 8000000 INFO @ Wed, 28 Jun 2017 08:01:04: 10000000 INFO @ Wed, 28 Jun 2017 08:01:09: 9000000 INFO @ Wed, 28 Jun 2017 08:01:09: 9000000 INFO @ Wed, 28 Jun 2017 08:01:11: 11000000 INFO @ Wed, 28 Jun 2017 08:01:19: 12000000 INFO @ Wed, 28 Jun 2017 08:01:19: 10000000 INFO @ Wed, 28 Jun 2017 08:01:19: 10000000 INFO @ Wed, 28 Jun 2017 08:01:27: 13000000 INFO @ Wed, 28 Jun 2017 08:01:29: 11000000 INFO @ Wed, 28 Jun 2017 08:01:29: 11000000 INFO @ Wed, 28 Jun 2017 08:01:35: 14000000 INFO @ Wed, 28 Jun 2017 08:01:39: 12000000 INFO @ Wed, 28 Jun 2017 08:01:39: 12000000 INFO @ Wed, 28 Jun 2017 08:01:42: 15000000 INFO @ Wed, 28 Jun 2017 08:01:46: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:01:46: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:01:46: #1 total tags in treatment: 7343700 INFO @ Wed, 28 Jun 2017 08:01:46: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:01:46: #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 08:01:46: #1 tags after filtering in treatment: 4454450 INFO @ Wed, 28 Jun 2017 08:01:46: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 28 Jun 2017 08:01:46: #1 finished! INFO @ Wed, 28 Jun 2017 08:01:46: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:01:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:01:46: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:01:46: 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 08:01:46: Process for pairing-model is terminated! cat: SRX2457697.05_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 `SRX2457697.05_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 `SRX2457697.05_*.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 `SRX2457697.05_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 @ Wed, 28 Jun 2017 08:01:48: 13000000 INFO @ Wed, 28 Jun 2017 08:01:48: 13000000 INFO @ Wed, 28 Jun 2017 08:01:58: 14000000 INFO @ Wed, 28 Jun 2017 08:01:58: 14000000 INFO @ Wed, 28 Jun 2017 08:02:08: 15000000 INFO @ Wed, 28 Jun 2017 08:02:08: 15000000 INFO @ Wed, 28 Jun 2017 08:02:12: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:02:12: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:02:12: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:02:12: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:02:12: #1 total tags in treatment: 7343700 INFO @ Wed, 28 Jun 2017 08:02:12: #1 total tags in treatment: 7343700 INFO @ Wed, 28 Jun 2017 08:02:12: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:02:12: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:02:12: #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 08:02:12: #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 08:02:12: #1 tags after filtering in treatment: 4454450 INFO @ Wed, 28 Jun 2017 08:02:12: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 28 Jun 2017 08:02:12: #1 finished! INFO @ Wed, 28 Jun 2017 08:02:12: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:02:12: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:02:12: #1 tags after filtering in treatment: 4454450 INFO @ Wed, 28 Jun 2017 08:02:12: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 28 Jun 2017 08:02:12: #1 finished! INFO @ Wed, 28 Jun 2017 08:02:12: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:02:12: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:02:12: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:02:12: 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 @ Wed, 28 Jun 2017 08:02:12: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 08:02:12: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:02:12: 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 @ Wed, 28 Jun 2017 08:02:12: Process for pairing-model is terminated! cat: SRX2457697.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX2457697.10_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 `SRX2457697.20_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 `SRX2457697.20_*.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 `SRX2457697.20_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2457697.10_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 `SRX2457697.10_*.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 `SRX2457697.10_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。