Job ID = 10536486 sra ファイルのダウンロード中... Completed: 1349927K bytes transferred in 50 seconds (217090K 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 32291246 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671182/SRR6696934.sra Written 32291246 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: 00:20:37 32291246 reads; of these: 32291246 (100.00%) were paired; of these: 8143469 (25.22%) aligned concordantly 0 times 19894175 (61.61%) aligned concordantly exactly 1 time 4253602 (13.17%) aligned concordantly >1 times ---- 8143469 pairs aligned concordantly 0 times; of these: 21445 (0.26%) aligned discordantly 1 time ---- 8122024 pairs aligned 0 times concordantly or discordantly; of these: 16244048 mates make up the pairs; of these: 16049765 (98.80%) aligned 0 times 147423 (0.91%) aligned exactly 1 time 46860 (0.29%) aligned >1 times 75.15% overall alignment rate Time searching: 00:20:37 Overall time: 00:20:37 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] 14917783 / 24157499 = 0.6175 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 10:10:14: # Command line: callpeak -t SRX3671182.bam -f BAM -g 12100000 -n SRX3671182.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671182.10 # format = BAM # ChIP-seq file = ['SRX3671182.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 10:10:14: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:10:14: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:10:14: # Command line: callpeak -t SRX3671182.bam -f BAM -g 12100000 -n SRX3671182.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671182.05 # format = BAM # ChIP-seq file = ['SRX3671182.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 10:10:14: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:10:14: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:10:14: # Command line: callpeak -t SRX3671182.bam -f BAM -g 12100000 -n SRX3671182.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671182.20 # format = BAM # ChIP-seq file = ['SRX3671182.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 10:10:14: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:10:14: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:10:21: 1000000 INFO @ Thu, 05 Apr 2018 10:10:21: 1000000 INFO @ Thu, 05 Apr 2018 10:10:21: 1000000 INFO @ Thu, 05 Apr 2018 10:10:28: 2000000 INFO @ Thu, 05 Apr 2018 10:10:28: 2000000 INFO @ Thu, 05 Apr 2018 10:10:28: 2000000 INFO @ Thu, 05 Apr 2018 10:10:34: 3000000 INFO @ Thu, 05 Apr 2018 10:10:34: 3000000 INFO @ Thu, 05 Apr 2018 10:10:34: 3000000 INFO @ Thu, 05 Apr 2018 10:10:41: 4000000 INFO @ Thu, 05 Apr 2018 10:10:41: 4000000 INFO @ Thu, 05 Apr 2018 10:10:41: 4000000 INFO @ Thu, 05 Apr 2018 10:10:48: 5000000 INFO @ Thu, 05 Apr 2018 10:10:48: 5000000 INFO @ Thu, 05 Apr 2018 10:10:48: 5000000 INFO @ Thu, 05 Apr 2018 10:10:54: 6000000 INFO @ Thu, 05 Apr 2018 10:10:54: 6000000 INFO @ Thu, 05 Apr 2018 10:10:54: 6000000 INFO @ Thu, 05 Apr 2018 10:11:01: 7000000 INFO @ Thu, 05 Apr 2018 10:11:01: 7000000 INFO @ Thu, 05 Apr 2018 10:11:01: 7000000 INFO @ Thu, 05 Apr 2018 10:11:07: 8000000 INFO @ Thu, 05 Apr 2018 10:11:08: 8000000 INFO @ Thu, 05 Apr 2018 10:11:08: 8000000 INFO @ Thu, 05 Apr 2018 10:11:14: 9000000 INFO @ Thu, 05 Apr 2018 10:11:15: 9000000 INFO @ Thu, 05 Apr 2018 10:11:15: 9000000 INFO @ Thu, 05 Apr 2018 10:11:21: 10000000 INFO @ Thu, 05 Apr 2018 10:11:21: 10000000 INFO @ Thu, 05 Apr 2018 10:11:21: 10000000 INFO @ Thu, 05 Apr 2018 10:11:27: 11000000 INFO @ Thu, 05 Apr 2018 10:11:28: 11000000 INFO @ Thu, 05 Apr 2018 10:11:28: 11000000 INFO @ Thu, 05 Apr 2018 10:11:34: 12000000 INFO @ Thu, 05 Apr 2018 10:11:34: 12000000 INFO @ Thu, 05 Apr 2018 10:11:34: 12000000 INFO @ Thu, 05 Apr 2018 10:11:40: 13000000 INFO @ Thu, 05 Apr 2018 10:11:41: 13000000 INFO @ Thu, 05 Apr 2018 10:11:41: 13000000 INFO @ Thu, 05 Apr 2018 10:11:47: 14000000 INFO @ Thu, 05 Apr 2018 10:11:48: 14000000 INFO @ Thu, 05 Apr 2018 10:11:48: 14000000 INFO @ Thu, 05 Apr 2018 10:11:53: 15000000 INFO @ Thu, 05 Apr 2018 10:11:54: 15000000 INFO @ Thu, 05 Apr 2018 10:11:54: 15000000 INFO @ Thu, 05 Apr 2018 10:12:00: 16000000 INFO @ Thu, 05 Apr 2018 10:12:01: 16000000 INFO @ Thu, 05 Apr 2018 10:12:01: 16000000 INFO @ Thu, 05 Apr 2018 10:12:07: 17000000 INFO @ Thu, 05 Apr 2018 10:12:08: 17000000 INFO @ Thu, 05 Apr 2018 10:12:08: 17000000 INFO @ Thu, 05 Apr 2018 10:12:13: 18000000 INFO @ Thu, 05 Apr 2018 10:12:14: 18000000 INFO @ Thu, 05 Apr 2018 10:12:14: 18000000 INFO @ Thu, 05 Apr 2018 10:12:18: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:12:18: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:12:18: #1 total tags in treatment: 9235867 INFO @ Thu, 05 Apr 2018 10:12:18: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:12:18: #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 10:12:18: #1 tags after filtering in treatment: 6678239 INFO @ Thu, 05 Apr 2018 10:12:18: #1 Redundant rate of treatment: 0.28 INFO @ Thu, 05 Apr 2018 10:12:18: #1 finished! INFO @ Thu, 05 Apr 2018 10:12:18: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:12:18: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:12:18: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:12:18: 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 @ Thu, 05 Apr 2018 10:12:18: Process for pairing-model is terminated! cat: SRX3671182.20_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 `SRX3671182.20_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 `SRX3671182.20_*.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 `SRX3671182.20_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 10:12:19: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:12:19: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:12:19: #1 total tags in treatment: 9235867 INFO @ Thu, 05 Apr 2018 10:12:19: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:12:19: #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 10:12:19: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:12:19: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:12:19: #1 total tags in treatment: 9235867 INFO @ Thu, 05 Apr 2018 10:12:19: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:12:19: #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 10:12:19: #1 tags after filtering in treatment: 6678239 INFO @ Thu, 05 Apr 2018 10:12:19: #1 Redundant rate of treatment: 0.28 INFO @ Thu, 05 Apr 2018 10:12:19: #1 finished! INFO @ Thu, 05 Apr 2018 10:12:19: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:12:19: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:12:19: #1 tags after filtering in treatment: 6678239 INFO @ Thu, 05 Apr 2018 10:12:19: #1 Redundant rate of treatment: 0.28 INFO @ Thu, 05 Apr 2018 10:12:19: #1 finished! INFO @ Thu, 05 Apr 2018 10:12:19: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:12:19: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:12:19: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:12:19: 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 10:12:19: Process for pairing-model is terminated! cat: SRX3671182.10_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 `SRX3671182.10_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 `SRX3671182.10_*.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 `SRX3671182.10_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 10:12:20: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:12:20: 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 10:12:20: Process for pairing-model is terminated! cat: SRX3671182.05_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 `SRX3671182.05_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 `SRX3671182.05_*.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 `SRX3671182.05_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 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。