Job ID = 10536432 sra ファイルのダウンロード中... Completed: 414545K bytes transferred in 14 seconds (228370K 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 13454750 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671162/SRR6696914.sra Written 13454750 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: 00:09:47 13454750 reads; of these: 13454750 (100.00%) were paired; of these: 845178 (6.28%) aligned concordantly 0 times 11116977 (82.62%) aligned concordantly exactly 1 time 1492595 (11.09%) aligned concordantly >1 times ---- 845178 pairs aligned concordantly 0 times; of these: 26778 (3.17%) aligned discordantly 1 time ---- 818400 pairs aligned 0 times concordantly or discordantly; of these: 1636800 mates make up the pairs; of these: 1587956 (97.02%) aligned 0 times 31954 (1.95%) aligned exactly 1 time 16890 (1.03%) aligned >1 times 94.10% overall alignment rate Time searching: 00:09:47 Overall time: 00:09:47 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 12 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] 4312811 / 12615657 = 0.3419 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 09:37:00: # Command line: callpeak -t SRX3671162.bam -f BAM -g 12100000 -n SRX3671162.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671162.20 # format = BAM # ChIP-seq file = ['SRX3671162.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 09:37:00: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:37:00: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:37:00: # Command line: callpeak -t SRX3671162.bam -f BAM -g 12100000 -n SRX3671162.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671162.10 # format = BAM # ChIP-seq file = ['SRX3671162.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 09:37:00: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:37:00: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:37:00: # Command line: callpeak -t SRX3671162.bam -f BAM -g 12100000 -n SRX3671162.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671162.05 # format = BAM # ChIP-seq file = ['SRX3671162.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 09:37:00: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:37:00: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:37:06: 1000000 INFO @ Thu, 05 Apr 2018 09:37:06: 1000000 INFO @ Thu, 05 Apr 2018 09:37:06: 1000000 INFO @ Thu, 05 Apr 2018 09:37:12: 2000000 INFO @ Thu, 05 Apr 2018 09:37:12: 2000000 INFO @ Thu, 05 Apr 2018 09:37:13: 2000000 INFO @ Thu, 05 Apr 2018 09:37:18: 3000000 INFO @ Thu, 05 Apr 2018 09:37:18: 3000000 INFO @ Thu, 05 Apr 2018 09:37:20: 3000000 INFO @ Thu, 05 Apr 2018 09:37:24: 4000000 INFO @ Thu, 05 Apr 2018 09:37:24: 4000000 INFO @ Thu, 05 Apr 2018 09:37:27: 4000000 INFO @ Thu, 05 Apr 2018 09:37:30: 5000000 INFO @ Thu, 05 Apr 2018 09:37:30: 5000000 INFO @ Thu, 05 Apr 2018 09:37:34: 5000000 INFO @ Thu, 05 Apr 2018 09:37:36: 6000000 INFO @ Thu, 05 Apr 2018 09:37:36: 6000000 INFO @ Thu, 05 Apr 2018 09:37:41: 6000000 INFO @ Thu, 05 Apr 2018 09:37:42: 7000000 INFO @ Thu, 05 Apr 2018 09:37:42: 7000000 INFO @ Thu, 05 Apr 2018 09:37:48: 8000000 INFO @ Thu, 05 Apr 2018 09:37:48: 8000000 INFO @ Thu, 05 Apr 2018 09:37:48: 7000000 INFO @ Thu, 05 Apr 2018 09:37:54: 9000000 INFO @ Thu, 05 Apr 2018 09:37:54: 9000000 INFO @ Thu, 05 Apr 2018 09:37:55: 8000000 INFO @ Thu, 05 Apr 2018 09:38:00: 10000000 INFO @ Thu, 05 Apr 2018 09:38:00: 10000000 INFO @ Thu, 05 Apr 2018 09:38:02: 9000000 INFO @ Thu, 05 Apr 2018 09:38:06: 11000000 INFO @ Thu, 05 Apr 2018 09:38:06: 11000000 INFO @ Thu, 05 Apr 2018 09:38:09: 10000000 INFO @ Thu, 05 Apr 2018 09:38:12: 12000000 INFO @ Thu, 05 Apr 2018 09:38:12: 12000000 INFO @ Thu, 05 Apr 2018 09:38:16: 11000000 INFO @ Thu, 05 Apr 2018 09:38:18: 13000000 INFO @ Thu, 05 Apr 2018 09:38:18: 13000000 INFO @ Thu, 05 Apr 2018 09:38:24: 12000000 INFO @ Thu, 05 Apr 2018 09:38:24: 14000000 INFO @ Thu, 05 Apr 2018 09:38:24: 14000000 INFO @ Thu, 05 Apr 2018 09:38:30: 15000000 INFO @ Thu, 05 Apr 2018 09:38:30: 15000000 INFO @ Thu, 05 Apr 2018 09:38:30: 13000000 INFO @ Thu, 05 Apr 2018 09:38:36: 16000000 INFO @ Thu, 05 Apr 2018 09:38:36: 16000000 INFO @ Thu, 05 Apr 2018 09:38:38: 14000000 INFO @ Thu, 05 Apr 2018 09:38:40: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:38:40: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:38:40: #1 total tags in treatment: 8297760 INFO @ Thu, 05 Apr 2018 09:38:40: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:38:40: #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 09:38:40: #1 tags after filtering in treatment: 6589919 INFO @ Thu, 05 Apr 2018 09:38:40: #1 Redundant rate of treatment: 0.21 INFO @ Thu, 05 Apr 2018 09:38:40: #1 finished! INFO @ Thu, 05 Apr 2018 09:38:40: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:38:40: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:38:40: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:38:40: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:38:40: #1 total tags in treatment: 8297760 INFO @ Thu, 05 Apr 2018 09:38:40: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:38:40: #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 09:38:41: #1 tags after filtering in treatment: 6589919 INFO @ Thu, 05 Apr 2018 09:38:41: #1 Redundant rate of treatment: 0.21 INFO @ Thu, 05 Apr 2018 09:38:41: #1 finished! INFO @ Thu, 05 Apr 2018 09:38:41: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:38:41: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:38:41: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:38:41: 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 09:38:41: Process for pairing-model is terminated! cat: SRX3671162.05_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 `SRX3671162.05_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 `SRX3671162.05_*.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 `SRX3671162.05_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 09:38:41: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:38:41: 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 09:38:41: Process for pairing-model is terminated! cat: SRX3671162.10_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 `SRX3671162.10_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 `SRX3671162.10_*.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 `SRX3671162.10_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 09:38:44: 15000000 INFO @ Thu, 05 Apr 2018 09:38:49: 16000000 INFO @ Thu, 05 Apr 2018 09:38:53: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:38:53: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:38:53: #1 total tags in treatment: 8297760 INFO @ Thu, 05 Apr 2018 09:38:53: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:38:53: #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 09:38:53: #1 tags after filtering in treatment: 6589919 INFO @ Thu, 05 Apr 2018 09:38:53: #1 Redundant rate of treatment: 0.21 INFO @ Thu, 05 Apr 2018 09:38:53: #1 finished! INFO @ Thu, 05 Apr 2018 09:38:53: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:38:53: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:38:53: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:38:53: 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 09:38:53: Process for pairing-model is terminated! cat: SRX3671162.20_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 `SRX3671162.20_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 `SRX3671162.20_*.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 `SRX3671162.20_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。