Job ID = 10536480 sra ファイルのダウンロード中... Completed: 508629K bytes transferred in 20 seconds (206979K 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 16487159 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671177/SRR6696929.sra Written 16487159 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: 00:12:27 16487159 reads; of these: 16487159 (100.00%) were paired; of these: 1244126 (7.55%) aligned concordantly 0 times 13370452 (81.10%) aligned concordantly exactly 1 time 1872581 (11.36%) aligned concordantly >1 times ---- 1244126 pairs aligned concordantly 0 times; of these: 45166 (3.63%) aligned discordantly 1 time ---- 1198960 pairs aligned 0 times concordantly or discordantly; of these: 2397920 mates make up the pairs; of these: 2324269 (96.93%) aligned 0 times 48184 (2.01%) aligned exactly 1 time 25467 (1.06%) aligned >1 times 92.95% overall alignment rate Time searching: 00:12:27 Overall time: 00:12:27 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 16 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] 5373308 / 15256388 = 0.3522 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 10:07:42: # Command line: callpeak -t SRX3671177.bam -f BAM -g 12100000 -n SRX3671177.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671177.10 # format = BAM # ChIP-seq file = ['SRX3671177.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 10:07:42: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:07:42: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:07:42: # Command line: callpeak -t SRX3671177.bam -f BAM -g 12100000 -n SRX3671177.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671177.05 # format = BAM # ChIP-seq file = ['SRX3671177.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 10:07:42: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:07:42: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:07:42: # Command line: callpeak -t SRX3671177.bam -f BAM -g 12100000 -n SRX3671177.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671177.20 # format = BAM # ChIP-seq file = ['SRX3671177.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 10:07:42: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:07:42: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:07:48: 1000000 INFO @ Thu, 05 Apr 2018 10:07:48: 1000000 INFO @ Thu, 05 Apr 2018 10:07:48: 1000000 INFO @ Thu, 05 Apr 2018 10:07:54: 2000000 INFO @ Thu, 05 Apr 2018 10:07:55: 2000000 INFO @ Thu, 05 Apr 2018 10:07:55: 2000000 INFO @ Thu, 05 Apr 2018 10:08:01: 3000000 INFO @ Thu, 05 Apr 2018 10:08:01: 3000000 INFO @ Thu, 05 Apr 2018 10:08:01: 3000000 INFO @ Thu, 05 Apr 2018 10:08:07: 4000000 INFO @ Thu, 05 Apr 2018 10:08:07: 4000000 INFO @ Thu, 05 Apr 2018 10:08:07: 4000000 INFO @ Thu, 05 Apr 2018 10:08:13: 5000000 INFO @ Thu, 05 Apr 2018 10:08:14: 5000000 INFO @ Thu, 05 Apr 2018 10:08:14: 5000000 INFO @ Thu, 05 Apr 2018 10:08:19: 6000000 INFO @ Thu, 05 Apr 2018 10:08:20: 6000000 INFO @ Thu, 05 Apr 2018 10:08:20: 6000000 INFO @ Thu, 05 Apr 2018 10:08:25: 7000000 INFO @ Thu, 05 Apr 2018 10:08:26: 7000000 INFO @ Thu, 05 Apr 2018 10:08:26: 7000000 INFO @ Thu, 05 Apr 2018 10:08:31: 8000000 INFO @ Thu, 05 Apr 2018 10:08:32: 8000000 INFO @ Thu, 05 Apr 2018 10:08:32: 8000000 INFO @ Thu, 05 Apr 2018 10:08:37: 9000000 INFO @ Thu, 05 Apr 2018 10:08:39: 9000000 INFO @ Thu, 05 Apr 2018 10:08:39: 9000000 INFO @ Thu, 05 Apr 2018 10:08:43: 10000000 INFO @ Thu, 05 Apr 2018 10:08:45: 10000000 INFO @ Thu, 05 Apr 2018 10:08:45: 10000000 INFO @ Thu, 05 Apr 2018 10:08:49: 11000000 INFO @ Thu, 05 Apr 2018 10:08:51: 11000000 INFO @ Thu, 05 Apr 2018 10:08:51: 11000000 INFO @ Thu, 05 Apr 2018 10:08:55: 12000000 INFO @ Thu, 05 Apr 2018 10:08:57: 12000000 INFO @ Thu, 05 Apr 2018 10:08:57: 12000000 INFO @ Thu, 05 Apr 2018 10:09:01: 13000000 INFO @ Thu, 05 Apr 2018 10:09:04: 13000000 INFO @ Thu, 05 Apr 2018 10:09:04: 13000000 INFO @ Thu, 05 Apr 2018 10:09:07: 14000000 INFO @ Thu, 05 Apr 2018 10:09:10: 14000000 INFO @ Thu, 05 Apr 2018 10:09:10: 14000000 INFO @ Thu, 05 Apr 2018 10:09:13: 15000000 INFO @ Thu, 05 Apr 2018 10:09:16: 15000000 INFO @ Thu, 05 Apr 2018 10:09:16: 15000000 INFO @ Thu, 05 Apr 2018 10:09:20: 16000000 INFO @ Thu, 05 Apr 2018 10:09:22: 16000000 INFO @ Thu, 05 Apr 2018 10:09:22: 16000000 INFO @ Thu, 05 Apr 2018 10:09:26: 17000000 INFO @ Thu, 05 Apr 2018 10:09:29: 17000000 INFO @ Thu, 05 Apr 2018 10:09:29: 17000000 INFO @ Thu, 05 Apr 2018 10:09:32: 18000000 INFO @ Thu, 05 Apr 2018 10:09:35: 18000000 INFO @ Thu, 05 Apr 2018 10:09:35: 18000000 INFO @ Thu, 05 Apr 2018 10:09:38: 19000000 INFO @ Thu, 05 Apr 2018 10:09:41: 19000000 INFO @ Thu, 05 Apr 2018 10:09:41: 19000000 INFO @ Thu, 05 Apr 2018 10:09:43: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:09:43: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:09:43: #1 total tags in treatment: 9871273 INFO @ Thu, 05 Apr 2018 10:09:43: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:09:43: #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 10:09:43: #1 tags after filtering in treatment: 7538093 INFO @ Thu, 05 Apr 2018 10:09:43: #1 Redundant rate of treatment: 0.24 INFO @ Thu, 05 Apr 2018 10:09:43: #1 finished! INFO @ Thu, 05 Apr 2018 10:09:43: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:09:43: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:09:44: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:09:44: 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 10:09:44: Process for pairing-model is terminated! cat: SRX3671177.20_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 `SRX3671177.20_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 `SRX3671177.20_*.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 `SRX3671177.20_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 @ Thu, 05 Apr 2018 10:09:47: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:09:47: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:09:47: #1 total tags in treatment: 9871273 INFO @ Thu, 05 Apr 2018 10:09:47: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:09:47: #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 10:09:47: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:09:47: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:09:47: #1 total tags in treatment: 9871273 INFO @ Thu, 05 Apr 2018 10:09:47: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:09:47: #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 10:09:47: #1 tags after filtering in treatment: 7538093 INFO @ Thu, 05 Apr 2018 10:09:47: #1 Redundant rate of treatment: 0.24 INFO @ Thu, 05 Apr 2018 10:09:47: #1 finished! INFO @ Thu, 05 Apr 2018 10:09:47: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:09:47: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:09:47: #1 tags after filtering in treatment: 7538093 INFO @ Thu, 05 Apr 2018 10:09:47: #1 Redundant rate of treatment: 0.24 INFO @ Thu, 05 Apr 2018 10:09:47: #1 finished! INFO @ Thu, 05 Apr 2018 10:09:47: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:09:47: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:09:47: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:09:47: 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 10:09:47: Process for pairing-model is terminated! cat: SRX3671177.05_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 `SRX3671177.05_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 `SRX3671177.05_*.xls'INFO @ Thu, 05 Apr 2018 10:09:47: #2 number of paired peaks: 0 : そのようなファイルやディレクトリはありません WARNING @ Thu, 05 Apr 2018 10:09:47: 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 10:09:47: Process for pairing-model is terminated! rm: cannot remove `SRX3671177.05_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 cat: SRX3671177.10_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 `SRX3671177.10_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 `SRX3671177.10_*.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 `SRX3671177.10_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。