Job ID = 10536439 sra ファイルのダウンロード中... Completed: 1300021K bytes transferred in 21 seconds (485403K 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 33566137 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671164/SRR6696916.sra Written 33566137 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: 00:15:12 33566137 reads; of these: 33566137 (100.00%) were paired; of these: 16889261 (50.32%) aligned concordantly 0 times 14557959 (43.37%) aligned concordantly exactly 1 time 2118917 (6.31%) aligned concordantly >1 times ---- 16889261 pairs aligned concordantly 0 times; of these: 45114 (0.27%) aligned discordantly 1 time ---- 16844147 pairs aligned 0 times concordantly or discordantly; of these: 33688294 mates make up the pairs; of these: 33337936 (98.96%) aligned 0 times 288491 (0.86%) aligned exactly 1 time 61867 (0.18%) aligned >1 times 50.34% overall alignment rate Time searching: 00:15:12 Overall time: 00:15:12 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] 6813399 / 16695880 = 0.4081 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 09:50:16: # Command line: callpeak -t SRX3671164.bam -f BAM -g 12100000 -n SRX3671164.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671164.10 # format = BAM # ChIP-seq file = ['SRX3671164.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 09:50:16: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:50:16: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:50:16: # Command line: callpeak -t SRX3671164.bam -f BAM -g 12100000 -n SRX3671164.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671164.20 # format = BAM # ChIP-seq file = ['SRX3671164.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 09:50:16: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:50:16: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:50:16: # Command line: callpeak -t SRX3671164.bam -f BAM -g 12100000 -n SRX3671164.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671164.05 # format = BAM # ChIP-seq file = ['SRX3671164.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 09:50:16: #1 read tag files... INFO @ Thu, 05 Apr 2018 09:50:16: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 09:50:23: 1000000 INFO @ Thu, 05 Apr 2018 09:50:23: 1000000 INFO @ Thu, 05 Apr 2018 09:50:23: 1000000 INFO @ Thu, 05 Apr 2018 09:50:30: 2000000 INFO @ Thu, 05 Apr 2018 09:50:30: 2000000 INFO @ Thu, 05 Apr 2018 09:50:30: 2000000 INFO @ Thu, 05 Apr 2018 09:50:37: 3000000 INFO @ Thu, 05 Apr 2018 09:50:37: 3000000 INFO @ Thu, 05 Apr 2018 09:50:37: 3000000 INFO @ Thu, 05 Apr 2018 09:50:44: 4000000 INFO @ Thu, 05 Apr 2018 09:50:44: 4000000 INFO @ Thu, 05 Apr 2018 09:50:45: 4000000 INFO @ Thu, 05 Apr 2018 09:50:51: 5000000 INFO @ Thu, 05 Apr 2018 09:50:51: 5000000 INFO @ Thu, 05 Apr 2018 09:50:52: 5000000 INFO @ Thu, 05 Apr 2018 09:50:57: 6000000 INFO @ Thu, 05 Apr 2018 09:50:57: 6000000 INFO @ Thu, 05 Apr 2018 09:50:59: 6000000 INFO @ Thu, 05 Apr 2018 09:51:04: 7000000 INFO @ Thu, 05 Apr 2018 09:51:04: 7000000 INFO @ Thu, 05 Apr 2018 09:51:06: 7000000 INFO @ Thu, 05 Apr 2018 09:51:11: 8000000 INFO @ Thu, 05 Apr 2018 09:51:11: 8000000 INFO @ Thu, 05 Apr 2018 09:51:13: 8000000 INFO @ Thu, 05 Apr 2018 09:51:18: 9000000 INFO @ Thu, 05 Apr 2018 09:51:18: 9000000 INFO @ Thu, 05 Apr 2018 09:51:20: 9000000 INFO @ Thu, 05 Apr 2018 09:51:25: 10000000 INFO @ Thu, 05 Apr 2018 09:51:25: 10000000 INFO @ Thu, 05 Apr 2018 09:51:27: 10000000 INFO @ Thu, 05 Apr 2018 09:51:32: 11000000 INFO @ Thu, 05 Apr 2018 09:51:32: 11000000 INFO @ Thu, 05 Apr 2018 09:51:35: 11000000 INFO @ Thu, 05 Apr 2018 09:51:39: 12000000 INFO @ Thu, 05 Apr 2018 09:51:39: 12000000 INFO @ Thu, 05 Apr 2018 09:51:42: 12000000 INFO @ Thu, 05 Apr 2018 09:51:45: 13000000 INFO @ Thu, 05 Apr 2018 09:51:45: 13000000 INFO @ Thu, 05 Apr 2018 09:51:49: 13000000 INFO @ Thu, 05 Apr 2018 09:51:52: 14000000 INFO @ Thu, 05 Apr 2018 09:51:52: 14000000 INFO @ Thu, 05 Apr 2018 09:51:56: 14000000 INFO @ Thu, 05 Apr 2018 09:51:59: 15000000 INFO @ Thu, 05 Apr 2018 09:51:59: 15000000 INFO @ Thu, 05 Apr 2018 09:52:03: 15000000 INFO @ Thu, 05 Apr 2018 09:52:06: 16000000 INFO @ Thu, 05 Apr 2018 09:52:06: 16000000 INFO @ Thu, 05 Apr 2018 09:52:10: 16000000 INFO @ Thu, 05 Apr 2018 09:52:13: 17000000 INFO @ Thu, 05 Apr 2018 09:52:13: 17000000 INFO @ Thu, 05 Apr 2018 09:52:17: 17000000 INFO @ Thu, 05 Apr 2018 09:52:20: 18000000 INFO @ Thu, 05 Apr 2018 09:52:20: 18000000 INFO @ Thu, 05 Apr 2018 09:52:24: 18000000 INFO @ Thu, 05 Apr 2018 09:52:27: 19000000 INFO @ Thu, 05 Apr 2018 09:52:27: 19000000 INFO @ Thu, 05 Apr 2018 09:52:31: 19000000 INFO @ Thu, 05 Apr 2018 09:52:33: 20000000 INFO @ Thu, 05 Apr 2018 09:52:33: 20000000 INFO @ Thu, 05 Apr 2018 09:52:35: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:52:35: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:52:35: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:52:35: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:52:35: #1 total tags in treatment: 9872001 INFO @ Thu, 05 Apr 2018 09:52:35: #1 total tags in treatment: 9872001 INFO @ Thu, 05 Apr 2018 09:52:35: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:52:35: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:52:35: #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 09:52:35: #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 09:52:35: #1 tags after filtering in treatment: 7455566 INFO @ Thu, 05 Apr 2018 09:52:35: #1 tags after filtering in treatment: 7455566 INFO @ Thu, 05 Apr 2018 09:52:35: #1 Redundant rate of treatment: 0.24 INFO @ Thu, 05 Apr 2018 09:52:35: #1 Redundant rate of treatment: 0.24 INFO @ Thu, 05 Apr 2018 09:52:35: #1 finished! INFO @ Thu, 05 Apr 2018 09:52:35: #1 finished! INFO @ Thu, 05 Apr 2018 09:52:35: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:52:35: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:52:35: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:52:35: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:52:35: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:52:35: 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 09:52:35: Process for pairing-model is terminated! INFO @ Thu, 05 Apr 2018 09:52:35: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:52:35: 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 09:52:35: Process for pairing-model is terminated! cat: SRX3671164.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX3671164.20_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): 0 millis pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3671164.05_model.r'rm: cannot remove `SRX3671164.20_model.r': そのようなファイルやディレクトリはありません : 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 `SRX3671164.05_*.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 `SRX3671164.20_*.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 `SRX3671164.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX3671164.20_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 CompletedMACS2peakCalling INFO @ Thu, 05 Apr 2018 09:52:38: 20000000 INFO @ Thu, 05 Apr 2018 09:52:39: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 09:52:39: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 09:52:39: #1 total tags in treatment: 9872001 INFO @ Thu, 05 Apr 2018 09:52:39: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 09:52:39: #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 09:52:40: #1 tags after filtering in treatment: 7455566 INFO @ Thu, 05 Apr 2018 09:52:40: #1 Redundant rate of treatment: 0.24 INFO @ Thu, 05 Apr 2018 09:52:40: #1 finished! INFO @ Thu, 05 Apr 2018 09:52:40: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 09:52:40: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 09:52:40: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 09:52:40: 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 09:52:40: Process for pairing-model is terminated! cat: SRX3671164.10_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 `SRX3671164.10_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 `SRX3671164.10_*.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 `SRX3671164.10_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。