Job ID = 10536410 sra ファイルのダウンロード中... Completed: 1109864K bytes transferred in 37 seconds (241432K 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 27131564 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671155/SRR6696907.sra Written 27131564 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: 00:20:04 27131564 reads; of these: 27131564 (100.00%) were paired; of these: 1543306 (5.69%) aligned concordantly 0 times 21487945 (79.20%) aligned concordantly exactly 1 time 4100313 (15.11%) aligned concordantly >1 times ---- 1543306 pairs aligned concordantly 0 times; of these: 79761 (5.17%) aligned discordantly 1 time ---- 1463545 pairs aligned 0 times concordantly or discordantly; of these: 2927090 mates make up the pairs; of these: 2622422 (89.59%) aligned 0 times 220057 (7.52%) aligned exactly 1 time 84611 (2.89%) aligned >1 times 95.17% overall alignment rate Time searching: 00:20:04 Overall time: 00:20:04 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 24 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] 15474022 / 25601275 = 0.6044 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 09:49:24: # Command line: callpeak -t SRX3671155.bam -f BAM -g 12100000 -n SRX3671155.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671155.10 # format = BAM # ChIP-seq file = ['SRX3671155.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 09:49:24: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:49:24: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:49:24: # Command line: callpeak -t SRX3671155.bam -f BAM -g 12100000 -n SRX3671155.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671155.05 # format = BAM # ChIP-seq file = ['SRX3671155.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 09:49:24: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:49:24: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:49:24: # Command line: callpeak -t SRX3671155.bam -f BAM -g 12100000 -n SRX3671155.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671155.20 # format = BAM # ChIP-seq file = ['SRX3671155.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 09:49:24: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:49:24: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:49:31: 1000000 INFO @ Thu, 05 Apr 2018 09:49:31: 1000000 INFO @ Thu, 05 Apr 2018 09:49:31: 1000000 INFO @ Thu, 05 Apr 2018 09:49:37: 2000000 INFO @ Thu, 05 Apr 2018 09:49:37: 2000000 INFO @ Thu, 05 Apr 2018 09:49:37: 2000000 INFO @ Thu, 05 Apr 2018 09:49:43: 3000000 INFO @ Thu, 05 Apr 2018 09:49:44: 3000000 INFO @ Thu, 05 Apr 2018 09:49:44: 3000000 INFO @ Thu, 05 Apr 2018 09:49:49: 4000000 INFO @ Thu, 05 Apr 2018 09:49:50: 4000000 INFO @ Thu, 05 Apr 2018 09:49:50: 4000000 INFO @ Thu, 05 Apr 2018 09:49:55: 5000000 INFO @ Thu, 05 Apr 2018 09:49:57: 5000000 INFO @ Thu, 05 Apr 2018 09:49:57: 5000000 INFO @ Thu, 05 Apr 2018 09:50:01: 6000000 INFO @ Thu, 05 Apr 2018 09:50:03: 6000000 INFO @ Thu, 05 Apr 2018 09:50:03: 6000000 INFO @ Thu, 05 Apr 2018 09:50:07: 7000000 INFO @ Thu, 05 Apr 2018 09:50:10: 7000000 INFO @ Thu, 05 Apr 2018 09:50:10: 7000000 INFO @ Thu, 05 Apr 2018 09:50:13: 8000000 INFO @ Thu, 05 Apr 2018 09:50:16: 8000000 INFO @ Thu, 05 Apr 2018 09:50:16: 8000000 INFO @ Thu, 05 Apr 2018 09:50:19: 9000000 INFO @ Thu, 05 Apr 2018 09:50:22: 9000000 INFO @ Thu, 05 Apr 2018 09:50:22: 9000000 INFO @ Thu, 05 Apr 2018 09:50:26: 10000000 INFO @ Thu, 05 Apr 2018 09:50:29: 10000000 INFO @ Thu, 05 Apr 2018 09:50:29: 10000000 INFO @ Thu, 05 Apr 2018 09:50:32: 11000000 INFO @ Thu, 05 Apr 2018 09:50:35: 11000000 INFO @ Thu, 05 Apr 2018 09:50:35: 11000000 INFO @ Thu, 05 Apr 2018 09:50:38: 12000000 INFO @ Thu, 05 Apr 2018 09:50:42: 12000000 INFO @ Thu, 05 Apr 2018 09:50:42: 12000000 INFO @ Thu, 05 Apr 2018 09:50:44: 13000000 INFO @ Thu, 05 Apr 2018 09:50:48: 13000000 INFO @ Thu, 05 Apr 2018 09:50:48: 13000000 INFO @ Thu, 05 Apr 2018 09:50:50: 14000000 INFO @ Thu, 05 Apr 2018 09:50:54: 14000000 INFO @ Thu, 05 Apr 2018 09:50:54: 14000000 INFO @ Thu, 05 Apr 2018 09:50:56: 15000000 INFO @ Thu, 05 Apr 2018 09:51:01: 15000000 INFO @ Thu, 05 Apr 2018 09:51:01: 15000000 INFO @ Thu, 05 Apr 2018 09:51:02: 16000000 INFO @ Thu, 05 Apr 2018 09:51:07: 16000000 INFO @ Thu, 05 Apr 2018 09:51:07: 16000000 INFO @ Thu, 05 Apr 2018 09:51:08: 17000000 INFO @ Thu, 05 Apr 2018 09:51:14: 17000000 INFO @ Thu, 05 Apr 2018 09:51:14: 17000000 INFO @ Thu, 05 Apr 2018 09:51:14: 18000000 INFO @ Thu, 05 Apr 2018 09:51:20: 19000000 INFO @ Thu, 05 Apr 2018 09:51:20: 18000000 INFO @ Thu, 05 Apr 2018 09:51:20: 18000000 INFO @ Thu, 05 Apr 2018 09:51:26: 20000000 INFO @ Thu, 05 Apr 2018 09:51:27: 19000000 INFO @ Thu, 05 Apr 2018 09:51:27: 19000000 INFO @ Thu, 05 Apr 2018 09:51:31: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:51:31: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:51:31: #1 total tags in treatment: 10120010 INFO @ Thu, 05 Apr 2018 09:51:31: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:51:31: #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 09:51:31: #1 tags after filtering in treatment: 7277257 INFO @ Thu, 05 Apr 2018 09:51:31: #1 Redundant rate of treatment: 0.28 INFO @ Thu, 05 Apr 2018 09:51:31: #1 finished! INFO @ Thu, 05 Apr 2018 09:51:31: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:51:31: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:51:31: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:51:31: 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 09:51:31: Process for pairing-model is terminated! cat: SRX3671155.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3671155.10_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 `SRX3671155.10_*.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 `SRX3671155.10_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 09:51:33: 20000000 INFO @ Thu, 05 Apr 2018 09:51:33: 20000000 INFO @ Thu, 05 Apr 2018 09:51:38: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:51:38: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:51:38: #1 total tags in treatment: 10120010 INFO @ Thu, 05 Apr 2018 09:51:38: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:51:38: #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 09:51:38: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:51:38: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:51:38: #1 total tags in treatment: 10120010 INFO @ Thu, 05 Apr 2018 09:51:38: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:51:38: #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 09:51:38: #1 tags after filtering in treatment: 7277257 INFO @ Thu, 05 Apr 2018 09:51:38: #1 Redundant rate of treatment: 0.28 INFO @ Thu, 05 Apr 2018 09:51:38: #1 finished! INFO @ Thu, 05 Apr 2018 09:51:38: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:51:38: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:51:38: #1 tags after filtering in treatment: 7277257 INFO @ Thu, 05 Apr 2018 09:51:38: #1 Redundant rate of treatment: 0.28 INFO @ Thu, 05 Apr 2018 09:51:38: #1 finished! INFO @ Thu, 05 Apr 2018 09:51:38: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:51:38: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:51:38: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:51:38: 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 09:51:38: Process for pairing-model is terminated! cat: SRX3671155.20_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 `SRX3671155.20_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 `SRX3671155.20_*.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 `SRX3671155.20_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 09:51:38: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:51:38: 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 09:51:38: Process for pairing-model is terminated! cat: SRX3671155.05_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 `SRX3671155.05_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 `SRX3671155.05_*.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 `SRX3671155.05_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。