Job ID = 10536455 sra ファイルのダウンロード中... Completed: 1353997K bytes transferred in 25 seconds (428355K bits/sec), in 1 file. 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 32145306 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671169/SRR6696921.sra Written 32145306 spots total rm: cannot remove `[DSE]RX*': 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 `[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: 00:17:17 32145306 reads; of these: 32145306 (100.00%) were paired; of these: 11230082 (34.94%) aligned concordantly 0 times 18268021 (56.83%) aligned concordantly exactly 1 time 2647203 (8.24%) aligned concordantly >1 times ---- 11230082 pairs aligned concordantly 0 times; of these: 47830 (0.43%) aligned discordantly 1 time ---- 11182252 pairs aligned 0 times concordantly or discordantly; of these: 22364504 mates make up the pairs; of these: 21901576 (97.93%) aligned 0 times 384529 (1.72%) aligned exactly 1 time 78399 (0.35%) aligned >1 times 65.93% overall alignment rate Time searching: 00:17:17 Overall time: 00:17:17 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 20 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] 10776575 / 20927667 = 0.5149 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 @ Thu, 05 Apr 2018 10:08:55: # Command line: callpeak -t SRX3671169.bam -f BAM -g 12100000 -n SRX3671169.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671169.10 # format = BAM # ChIP-seq file = ['SRX3671169.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 @ Thu, 05 Apr 2018 10:08:55: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:08:55: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:08:55: # Command line: callpeak -t SRX3671169.bam -f BAM -g 12100000 -n SRX3671169.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671169.05 # format = BAM # ChIP-seq file = ['SRX3671169.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 @ Thu, 05 Apr 2018 10:08:55: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:08:55: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:08:55: # Command line: callpeak -t SRX3671169.bam -f BAM -g 12100000 -n SRX3671169.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671169.20 # format = BAM # ChIP-seq file = ['SRX3671169.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 @ Thu, 05 Apr 2018 10:08:55: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:08:55: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:09:00: 1000000 INFO @ Thu, 05 Apr 2018 10:09:01: 1000000 INFO @ Thu, 05 Apr 2018 10:09:01: 1000000 INFO @ Thu, 05 Apr 2018 10:09:06: 2000000 INFO @ Thu, 05 Apr 2018 10:09:07: 2000000 INFO @ Thu, 05 Apr 2018 10:09:07: 2000000 INFO @ Thu, 05 Apr 2018 10:09:11: 3000000 INFO @ Thu, 05 Apr 2018 10:09:12: 3000000 INFO @ Thu, 05 Apr 2018 10:09:12: 3000000 INFO @ Thu, 05 Apr 2018 10:09:17: 4000000 INFO @ Thu, 05 Apr 2018 10:09:18: 4000000 INFO @ Thu, 05 Apr 2018 10:09:18: 4000000 INFO @ Thu, 05 Apr 2018 10:09:22: 5000000 INFO @ Thu, 05 Apr 2018 10:09:24: 5000000 INFO @ Thu, 05 Apr 2018 10:09:24: 5000000 INFO @ Thu, 05 Apr 2018 10:09:28: 6000000 INFO @ Thu, 05 Apr 2018 10:09:30: 6000000 INFO @ Thu, 05 Apr 2018 10:09:30: 6000000 INFO @ Thu, 05 Apr 2018 10:09:34: 7000000 INFO @ Thu, 05 Apr 2018 10:09:36: 7000000 INFO @ Thu, 05 Apr 2018 10:09:36: 7000000 INFO @ Thu, 05 Apr 2018 10:09:39: 8000000 INFO @ Thu, 05 Apr 2018 10:09:42: 8000000 INFO @ Thu, 05 Apr 2018 10:09:42: 8000000 INFO @ Thu, 05 Apr 2018 10:09:45: 9000000 INFO @ Thu, 05 Apr 2018 10:09:47: 9000000 INFO @ Thu, 05 Apr 2018 10:09:47: 9000000 INFO @ Thu, 05 Apr 2018 10:09:50: 10000000 INFO @ Thu, 05 Apr 2018 10:09:53: 10000000 INFO @ Thu, 05 Apr 2018 10:09:53: 10000000 INFO @ Thu, 05 Apr 2018 10:09:56: 11000000 INFO @ Thu, 05 Apr 2018 10:09:59: 11000000 INFO @ Thu, 05 Apr 2018 10:09:59: 11000000 INFO @ Thu, 05 Apr 2018 10:10:01: 12000000 INFO @ Thu, 05 Apr 2018 10:10:05: 12000000 INFO @ Thu, 05 Apr 2018 10:10:05: 12000000 INFO @ Thu, 05 Apr 2018 10:10:07: 13000000 INFO @ Thu, 05 Apr 2018 10:10:11: 13000000 INFO @ Thu, 05 Apr 2018 10:10:11: 13000000 INFO @ Thu, 05 Apr 2018 10:10:12: 14000000 INFO @ Thu, 05 Apr 2018 10:10:17: 14000000 INFO @ Thu, 05 Apr 2018 10:10:17: 14000000 INFO @ Thu, 05 Apr 2018 10:10:18: 15000000 INFO @ Thu, 05 Apr 2018 10:10:23: 15000000 INFO @ Thu, 05 Apr 2018 10:10:23: 15000000 INFO @ Thu, 05 Apr 2018 10:10:23: 16000000 INFO @ Thu, 05 Apr 2018 10:10:29: 16000000 INFO @ Thu, 05 Apr 2018 10:10:29: 17000000 INFO @ Thu, 05 Apr 2018 10:10:29: 16000000 INFO @ Thu, 05 Apr 2018 10:10:34: 18000000 INFO @ Thu, 05 Apr 2018 10:10:35: 17000000 INFO @ Thu, 05 Apr 2018 10:10:36: 17000000 INFO @ Thu, 05 Apr 2018 10:10:40: 19000000 INFO @ Thu, 05 Apr 2018 10:10:41: 18000000 INFO @ Thu, 05 Apr 2018 10:10:42: 18000000 INFO @ Thu, 05 Apr 2018 10:10:45: 20000000 INFO @ Thu, 05 Apr 2018 10:10:47: 19000000 INFO @ Thu, 05 Apr 2018 10:10:48: 19000000 INFO @ Thu, 05 Apr 2018 10:10:50: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:10:50: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:10:50: #1 total tags in treatment: 10145917 INFO @ Thu, 05 Apr 2018 10:10:50: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:10:50: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:10:50: #1 tags after filtering in treatment: 7539990 INFO @ Thu, 05 Apr 2018 10:10:50: #1 Redundant rate of treatment: 0.26 INFO @ Thu, 05 Apr 2018 10:10:50: #1 finished! INFO @ Thu, 05 Apr 2018 10:10:50: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:10:50: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:10:51: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:10:51: 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 @ Thu, 05 Apr 2018 10:10:51: Process for pairing-model is terminated! cat: SRX3671169.10_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 `SRX3671169.10_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 `SRX3671169.10_*.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 `SRX3671169.10_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 @ Thu, 05 Apr 2018 10:10:53: 20000000 INFO @ Thu, 05 Apr 2018 10:10:55: 20000000 INFO @ Thu, 05 Apr 2018 10:10:58: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:10:58: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:10:58: #1 total tags in treatment: 10145917 INFO @ Thu, 05 Apr 2018 10:10:58: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:10:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:10:59: #1 tags after filtering in treatment: 7539990 INFO @ Thu, 05 Apr 2018 10:10:59: #1 Redundant rate of treatment: 0.26 INFO @ Thu, 05 Apr 2018 10:10:59: #1 finished! INFO @ Thu, 05 Apr 2018 10:10:59: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:10:59: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:10:59: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:10:59: 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 @ Thu, 05 Apr 2018 10:10:59: Process for pairing-model is terminated! cat: SRX3671169.05_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 `SRX3671169.05_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 `SRX3671169.05_*.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 `SRX3671169.05_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 @ Thu, 05 Apr 2018 10:11:00: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:11:00: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:11:00: #1 total tags in treatment: 10145917 INFO @ Thu, 05 Apr 2018 10:11:00: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:11:00: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:11:00: #1 tags after filtering in treatment: 7539990 INFO @ Thu, 05 Apr 2018 10:11:00: #1 Redundant rate of treatment: 0.26 INFO @ Thu, 05 Apr 2018 10:11:00: #1 finished! INFO @ Thu, 05 Apr 2018 10:11:00: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:11:00: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:11:00: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:11:00: 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 @ Thu, 05 Apr 2018 10:11:00: Process for pairing-model is terminated! cat: SRX3671169.20_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 `SRX3671169.20_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 `SRX3671169.20_*.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 `SRX3671169.20_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。