Job ID = 9732077 sra ファイルのダウンロード中... Completed: 389070K bytes transferred in 15 seconds (201539K bits/sec), in 1 file, 2 directories. 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 16293494 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2675869/SRR5380645.sra Written 16293494 spots total 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: 00:07:10 16293494 reads; of these: 16293494 (100.00%) were paired; of these: 3676677 (22.57%) aligned concordantly 0 times 11360120 (69.72%) aligned concordantly exactly 1 time 1256697 (7.71%) aligned concordantly >1 times ---- 3676677 pairs aligned concordantly 0 times; of these: 389492 (10.59%) aligned discordantly 1 time ---- 3287185 pairs aligned 0 times concordantly or discordantly; of these: 6574370 mates make up the pairs; of these: 6058733 (92.16%) aligned 0 times 381591 (5.80%) aligned exactly 1 time 134046 (2.04%) aligned >1 times 81.41% overall alignment rate Time searching: 00:07:11 Overall time: 00:07:11 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 8 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] 1939449 / 12916218 = 0.1502 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 @ Sun, 03 Sep 2017 19:37:26: # Command line: callpeak -t SRX2675869.bam -f BAM -g 12100000 -n SRX2675869.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2675869.10 # format = BAM # ChIP-seq file = ['SRX2675869.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 @ Sun, 03 Sep 2017 19:37:26: # Command line: callpeak -t SRX2675869.bam -f BAM -g 12100000 -n SRX2675869.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2675869.05 # format = BAM # ChIP-seq file = ['SRX2675869.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 @ Sun, 03 Sep 2017 19:37:26: # Command line: callpeak -t SRX2675869.bam -f BAM -g 12100000 -n SRX2675869.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2675869.20 # format = BAM # ChIP-seq file = ['SRX2675869.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 @ Sun, 03 Sep 2017 19:37:26: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:37:26: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:37:26: #1 read tag files... INFO @ Sun, 03 Sep 2017 19:37:26: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:37:26: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:37:26: #1 read treatment tags... INFO @ Sun, 03 Sep 2017 19:37:31: 1000000 INFO @ Sun, 03 Sep 2017 19:37:31: 1000000 INFO @ Sun, 03 Sep 2017 19:37:31: 1000000 INFO @ Sun, 03 Sep 2017 19:37:36: 2000000 INFO @ Sun, 03 Sep 2017 19:37:36: 2000000 INFO @ Sun, 03 Sep 2017 19:37:36: 2000000 INFO @ Sun, 03 Sep 2017 19:37:41: 3000000 INFO @ Sun, 03 Sep 2017 19:37:41: 3000000 INFO @ Sun, 03 Sep 2017 19:37:41: 3000000 INFO @ Sun, 03 Sep 2017 19:37:46: 4000000 INFO @ Sun, 03 Sep 2017 19:37:46: 4000000 INFO @ Sun, 03 Sep 2017 19:37:47: 4000000 INFO @ Sun, 03 Sep 2017 19:37:51: 5000000 INFO @ Sun, 03 Sep 2017 19:37:51: 5000000 INFO @ Sun, 03 Sep 2017 19:37:52: 5000000 INFO @ Sun, 03 Sep 2017 19:37:56: 6000000 INFO @ Sun, 03 Sep 2017 19:37:56: 6000000 INFO @ Sun, 03 Sep 2017 19:37:57: 6000000 INFO @ Sun, 03 Sep 2017 19:38:01: 7000000 INFO @ Sun, 03 Sep 2017 19:38:01: 7000000 INFO @ Sun, 03 Sep 2017 19:38:02: 7000000 INFO @ Sun, 03 Sep 2017 19:38:06: 8000000 INFO @ Sun, 03 Sep 2017 19:38:06: 8000000 INFO @ Sun, 03 Sep 2017 19:38:08: 8000000 INFO @ Sun, 03 Sep 2017 19:38:11: 9000000 INFO @ Sun, 03 Sep 2017 19:38:11: 9000000 INFO @ Sun, 03 Sep 2017 19:38:13: 9000000 INFO @ Sun, 03 Sep 2017 19:38:16: 10000000 INFO @ Sun, 03 Sep 2017 19:38:16: 10000000 INFO @ Sun, 03 Sep 2017 19:38:18: 10000000 INFO @ Sun, 03 Sep 2017 19:38:21: 11000000 INFO @ Sun, 03 Sep 2017 19:38:21: 11000000 INFO @ Sun, 03 Sep 2017 19:38:23: 11000000 INFO @ Sun, 03 Sep 2017 19:38:26: 12000000 INFO @ Sun, 03 Sep 2017 19:38:26: 12000000 INFO @ Sun, 03 Sep 2017 19:38:29: 12000000 INFO @ Sun, 03 Sep 2017 19:38:31: 13000000 INFO @ Sun, 03 Sep 2017 19:38:31: 13000000 INFO @ Sun, 03 Sep 2017 19:38:34: 13000000 INFO @ Sun, 03 Sep 2017 19:38:36: 14000000 INFO @ Sun, 03 Sep 2017 19:38:37: 14000000 INFO @ Sun, 03 Sep 2017 19:38:39: 14000000 INFO @ Sun, 03 Sep 2017 19:38:41: 15000000 INFO @ Sun, 03 Sep 2017 19:38:41: 15000000 INFO @ Sun, 03 Sep 2017 19:38:44: 15000000 INFO @ Sun, 03 Sep 2017 19:38:46: 16000000 INFO @ Sun, 03 Sep 2017 19:38:46: 16000000 INFO @ Sun, 03 Sep 2017 19:38:49: 16000000 INFO @ Sun, 03 Sep 2017 19:38:51: 17000000 INFO @ Sun, 03 Sep 2017 19:38:51: 17000000 INFO @ Sun, 03 Sep 2017 19:38:55: 17000000 INFO @ Sun, 03 Sep 2017 19:38:56: 18000000 INFO @ Sun, 03 Sep 2017 19:38:56: 18000000 INFO @ Sun, 03 Sep 2017 19:39:00: 18000000 INFO @ Sun, 03 Sep 2017 19:39:01: 19000000 INFO @ Sun, 03 Sep 2017 19:39:01: 19000000 INFO @ Sun, 03 Sep 2017 19:39:05: 19000000 INFO @ Sun, 03 Sep 2017 19:39:06: 20000000 INFO @ Sun, 03 Sep 2017 19:39:06: 20000000 INFO @ Sun, 03 Sep 2017 19:39:10: 20000000 INFO @ Sun, 03 Sep 2017 19:39:11: 21000000 INFO @ Sun, 03 Sep 2017 19:39:11: 21000000 INFO @ Sun, 03 Sep 2017 19:39:15: 21000000 INFO @ Sun, 03 Sep 2017 19:39:16: 22000000 INFO @ Sun, 03 Sep 2017 19:39:16: 22000000 INFO @ Sun, 03 Sep 2017 19:39:20: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:39:20: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:39:20: #1 total tags in treatment: 10681787 INFO @ Sun, 03 Sep 2017 19:39:20: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:39:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Sep 2017 19:39:20: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:39:20: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:39:20: #1 total tags in treatment: 10681787 INFO @ Sun, 03 Sep 2017 19:39:20: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:39:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Sep 2017 19:39:20: #1 tags after filtering in treatment: 4914555 INFO @ Sun, 03 Sep 2017 19:39:20: #1 Redundant rate of treatment: 0.54 INFO @ Sun, 03 Sep 2017 19:39:20: #1 finished! INFO @ Sun, 03 Sep 2017 19:39:20: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:39:20: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:39:20: #1 tags after filtering in treatment: 4914555 INFO @ Sun, 03 Sep 2017 19:39:20: #1 Redundant rate of treatment: 0.54 INFO @ Sun, 03 Sep 2017 19:39:20: #1 finished! INFO @ Sun, 03 Sep 2017 19:39:20: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:39:20: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:39:20: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:39:20: 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 @ Sun, 03 Sep 2017 19:39:20: Process for pairing-model is terminated! cat: SRX2675869.20_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675869.20_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 `SRX2675869.20_*.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 `SRX2675869.20_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 @ Sun, 03 Sep 2017 19:39:20: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:39:20: 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 @ Sun, 03 Sep 2017 19:39:20: Process for pairing-model is terminated! cat: SRX2675869.10_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): 3 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675869.10_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 `SRX2675869.10_*.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 `SRX2675869.10_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 @ Sun, 03 Sep 2017 19:39:20: 22000000 INFO @ Sun, 03 Sep 2017 19:39:24: #1 tag size is determined as 25 bps INFO @ Sun, 03 Sep 2017 19:39:24: #1 tag size = 25 INFO @ Sun, 03 Sep 2017 19:39:24: #1 total tags in treatment: 10681787 INFO @ Sun, 03 Sep 2017 19:39:24: #1 user defined the maximum tags... INFO @ Sun, 03 Sep 2017 19:39:24: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Sep 2017 19:39:24: #1 tags after filtering in treatment: 4914555 INFO @ Sun, 03 Sep 2017 19:39:24: #1 Redundant rate of treatment: 0.54 INFO @ Sun, 03 Sep 2017 19:39:24: #1 finished! INFO @ Sun, 03 Sep 2017 19:39:24: #2 Build Peak Model... INFO @ Sun, 03 Sep 2017 19:39:24: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Sep 2017 19:39:24: #2 number of paired peaks: 0 WARNING @ Sun, 03 Sep 2017 19:39:24: 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 @ Sun, 03 Sep 2017 19:39:24: Process for pairing-model is terminated! cat: SRX2675869.05_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2675869.05_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 `SRX2675869.05_*.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 `SRX2675869.05_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。