Job ID = 9302945 sra ファイルのダウンロード中... Completed: 746504K bytes transferred in 17 seconds (347440K 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 13765987 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2961326/SRR5761575.sra Written 13765987 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: 00:10:08 13765987 reads; of these: 13765987 (100.00%) were paired; of these: 1391289 (10.11%) aligned concordantly 0 times 11064213 (80.37%) aligned concordantly exactly 1 time 1310485 (9.52%) aligned concordantly >1 times ---- 1391289 pairs aligned concordantly 0 times; of these: 80346 (5.77%) aligned discordantly 1 time ---- 1310943 pairs aligned 0 times concordantly or discordantly; of these: 2621886 mates make up the pairs; of these: 2337227 (89.14%) aligned 0 times 178771 (6.82%) aligned exactly 1 time 105888 (4.04%) aligned >1 times 91.51% overall alignment rate Time searching: 00:10:08 Overall time: 00:10:08 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] 1447028 / 12386161 = 0.1168 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 @ Fri, 28 Jul 2017 11:53:31: # Command line: callpeak -t SRX2961326.bam -f BAM -g 12100000 -n SRX2961326.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2961326.10 # format = BAM # ChIP-seq file = ['SRX2961326.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 @ Fri, 28 Jul 2017 11:53:31: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:53:31: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:53:31: # Command line: callpeak -t SRX2961326.bam -f BAM -g 12100000 -n SRX2961326.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2961326.05 # format = BAM # ChIP-seq file = ['SRX2961326.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 @ Fri, 28 Jul 2017 11:53:31: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:53:31: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:53:31: # Command line: callpeak -t SRX2961326.bam -f BAM -g 12100000 -n SRX2961326.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2961326.20 # format = BAM # ChIP-seq file = ['SRX2961326.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 @ Fri, 28 Jul 2017 11:53:31: #1 read tag files... INFO @ Fri, 28 Jul 2017 11:53:31: #1 read treatment tags... INFO @ Fri, 28 Jul 2017 11:53:37: 1000000 INFO @ Fri, 28 Jul 2017 11:53:38: 1000000 INFO @ Fri, 28 Jul 2017 11:53:38: 1000000 INFO @ Fri, 28 Jul 2017 11:53:43: 2000000 INFO @ Fri, 28 Jul 2017 11:53:44: 2000000 INFO @ Fri, 28 Jul 2017 11:53:44: 2000000 INFO @ Fri, 28 Jul 2017 11:53:49: 3000000 INFO @ Fri, 28 Jul 2017 11:53:50: 3000000 INFO @ Fri, 28 Jul 2017 11:53:50: 3000000 INFO @ Fri, 28 Jul 2017 11:53:54: 4000000 INFO @ Fri, 28 Jul 2017 11:53:56: 4000000 INFO @ Fri, 28 Jul 2017 11:53:57: 4000000 INFO @ Fri, 28 Jul 2017 11:54:00: 5000000 INFO @ Fri, 28 Jul 2017 11:54:02: 5000000 INFO @ Fri, 28 Jul 2017 11:54:03: 5000000 INFO @ Fri, 28 Jul 2017 11:54:06: 6000000 INFO @ Fri, 28 Jul 2017 11:54:08: 6000000 INFO @ Fri, 28 Jul 2017 11:54:10: 6000000 INFO @ Fri, 28 Jul 2017 11:54:11: 7000000 INFO @ Fri, 28 Jul 2017 11:54:14: 7000000 INFO @ Fri, 28 Jul 2017 11:54:16: 7000000 INFO @ Fri, 28 Jul 2017 11:54:17: 8000000 INFO @ Fri, 28 Jul 2017 11:54:20: 8000000 INFO @ Fri, 28 Jul 2017 11:54:23: 8000000 INFO @ Fri, 28 Jul 2017 11:54:23: 9000000 INFO @ Fri, 28 Jul 2017 11:54:26: 9000000 INFO @ Fri, 28 Jul 2017 11:54:29: 10000000 INFO @ Fri, 28 Jul 2017 11:54:29: 9000000 INFO @ Fri, 28 Jul 2017 11:54:33: 10000000 INFO @ Fri, 28 Jul 2017 11:54:34: 11000000 INFO @ Fri, 28 Jul 2017 11:54:36: 10000000 INFO @ Fri, 28 Jul 2017 11:54:39: 11000000 INFO @ Fri, 28 Jul 2017 11:54:40: 12000000 INFO @ Fri, 28 Jul 2017 11:54:42: 11000000 INFO @ Fri, 28 Jul 2017 11:54:45: 12000000 INFO @ Fri, 28 Jul 2017 11:54:46: 13000000 INFO @ Fri, 28 Jul 2017 11:54:49: 12000000 INFO @ Fri, 28 Jul 2017 11:54:51: 14000000 INFO @ Fri, 28 Jul 2017 11:54:52: 13000000 INFO @ Fri, 28 Jul 2017 11:54:55: 13000000 INFO @ Fri, 28 Jul 2017 11:54:57: 15000000 INFO @ Fri, 28 Jul 2017 11:54:58: 14000000 INFO @ Fri, 28 Jul 2017 11:55:02: 14000000 INFO @ Fri, 28 Jul 2017 11:55:03: 16000000 INFO @ Fri, 28 Jul 2017 11:55:04: 15000000 INFO @ Fri, 28 Jul 2017 11:55:08: 17000000 INFO @ Fri, 28 Jul 2017 11:55:08: 15000000 INFO @ Fri, 28 Jul 2017 11:55:10: 16000000 INFO @ Fri, 28 Jul 2017 11:55:14: 18000000 INFO @ Fri, 28 Jul 2017 11:55:15: 16000000 INFO @ Fri, 28 Jul 2017 11:55:16: 17000000 INFO @ Fri, 28 Jul 2017 11:55:20: 19000000 INFO @ Fri, 28 Jul 2017 11:55:21: 17000000 INFO @ Fri, 28 Jul 2017 11:55:22: 18000000 INFO @ Fri, 28 Jul 2017 11:55:25: 20000000 INFO @ Fri, 28 Jul 2017 11:55:28: 18000000 INFO @ Fri, 28 Jul 2017 11:55:29: 19000000 INFO @ Fri, 28 Jul 2017 11:55:31: 21000000 INFO @ Fri, 28 Jul 2017 11:55:34: 19000000 INFO @ Fri, 28 Jul 2017 11:55:35: 20000000 INFO @ Fri, 28 Jul 2017 11:55:37: 22000000 INFO @ Fri, 28 Jul 2017 11:55:39: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 11:55:39: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 11:55:39: #1 total tags in treatment: 10928299 INFO @ Fri, 28 Jul 2017 11:55:39: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:55:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:55:39: #1 tags after filtering in treatment: 5590250 INFO @ Fri, 28 Jul 2017 11:55:39: #1 Redundant rate of treatment: 0.49 INFO @ Fri, 28 Jul 2017 11:55:39: #1 finished! INFO @ Fri, 28 Jul 2017 11:55:39: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:55:39: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:55:39: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 11:55:39: 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 @ Fri, 28 Jul 2017 11:55:39: Process for pairing-model is terminated! cat: SRX2961326.10_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 `SRX2961326.10_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 `SRX2961326.10_*.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 `SRX2961326.10_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 @ Fri, 28 Jul 2017 11:55:41: 20000000 INFO @ Fri, 28 Jul 2017 11:55:41: 21000000 INFO @ Fri, 28 Jul 2017 11:55:47: 22000000 INFO @ Fri, 28 Jul 2017 11:55:47: 21000000 INFO @ Fri, 28 Jul 2017 11:55:49: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 11:55:49: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 11:55:49: #1 total tags in treatment: 10928299 INFO @ Fri, 28 Jul 2017 11:55:49: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:55:49: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:55:49: #1 tags after filtering in treatment: 5590250 INFO @ Fri, 28 Jul 2017 11:55:49: #1 Redundant rate of treatment: 0.49 INFO @ Fri, 28 Jul 2017 11:55:49: #1 finished! INFO @ Fri, 28 Jul 2017 11:55:49: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:55:49: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:55:49: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 11:55:49: 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 @ Fri, 28 Jul 2017 11:55:49: Process for pairing-model is terminated! cat: SRX2961326.20_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 `SRX2961326.20_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 `SRX2961326.20_*.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 `SRX2961326.20_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 @ Fri, 28 Jul 2017 11:55:53: 22000000 INFO @ Fri, 28 Jul 2017 11:55:55: #1 tag size is determined as 50 bps INFO @ Fri, 28 Jul 2017 11:55:55: #1 tag size = 50 INFO @ Fri, 28 Jul 2017 11:55:55: #1 total tags in treatment: 10928299 INFO @ Fri, 28 Jul 2017 11:55:55: #1 user defined the maximum tags... INFO @ Fri, 28 Jul 2017 11:55:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 28 Jul 2017 11:55:55: #1 tags after filtering in treatment: 5590250 INFO @ Fri, 28 Jul 2017 11:55:55: #1 Redundant rate of treatment: 0.49 INFO @ Fri, 28 Jul 2017 11:55:55: #1 finished! INFO @ Fri, 28 Jul 2017 11:55:55: #2 Build Peak Model... INFO @ Fri, 28 Jul 2017 11:55:55: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 28 Jul 2017 11:55:55: #2 number of paired peaks: 0 WARNING @ Fri, 28 Jul 2017 11:55:55: 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 @ Fri, 28 Jul 2017 11:55:55: Process for pairing-model is terminated! cat: SRX2961326.05_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2961326.05_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 `SRX2961326.05_*.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 `SRX2961326.05_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。