Job ID = 9162414 sra ファイルのダウンロード中... Completed: 811493K bytes transferred in 11 seconds (577032K 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 9477342 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2457694/SRR5138809.sra Written 9477342 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: 00:12:54 9477342 reads; of these: 9477342 (100.00%) were paired; of these: 772831 (8.15%) aligned concordantly 0 times 7884797 (83.20%) aligned concordantly exactly 1 time 819714 (8.65%) aligned concordantly >1 times ---- 772831 pairs aligned concordantly 0 times; of these: 415035 (53.70%) aligned discordantly 1 time ---- 357796 pairs aligned 0 times concordantly or discordantly; of these: 715592 mates make up the pairs; of these: 528225 (73.82%) aligned 0 times 86884 (12.14%) aligned exactly 1 time 100483 (14.04%) aligned >1 times 97.21% overall alignment rate Time searching: 00:12:54 Overall time: 00:12:54 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] 837083 / 9060476 = 0.0924 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 @ Wed, 28 Jun 2017 08:02:57: # Command line: callpeak -t SRX2457694.bam -f BAM -g 12100000 -n SRX2457694.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2457694.10 # format = BAM # ChIP-seq file = ['SRX2457694.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 @ Wed, 28 Jun 2017 08:02:57: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:02:57: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:02:57: # Command line: callpeak -t SRX2457694.bam -f BAM -g 12100000 -n SRX2457694.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2457694.20 # format = BAM # ChIP-seq file = ['SRX2457694.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 @ Wed, 28 Jun 2017 08:02:57: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:02:57: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:02:57: # Command line: callpeak -t SRX2457694.bam -f BAM -g 12100000 -n SRX2457694.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2457694.05 # format = BAM # ChIP-seq file = ['SRX2457694.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 @ Wed, 28 Jun 2017 08:02:57: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:02:57: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:03:06: 1000000 INFO @ Wed, 28 Jun 2017 08:03:06: 1000000 INFO @ Wed, 28 Jun 2017 08:03:06: 1000000 INFO @ Wed, 28 Jun 2017 08:03:14: 2000000 INFO @ Wed, 28 Jun 2017 08:03:15: 2000000 INFO @ Wed, 28 Jun 2017 08:03:15: 2000000 INFO @ Wed, 28 Jun 2017 08:03:24: 3000000 INFO @ Wed, 28 Jun 2017 08:03:24: 3000000 INFO @ Wed, 28 Jun 2017 08:03:24: 3000000 INFO @ Wed, 28 Jun 2017 08:03:33: 4000000 INFO @ Wed, 28 Jun 2017 08:03:33: 4000000 INFO @ Wed, 28 Jun 2017 08:03:33: 4000000 INFO @ Wed, 28 Jun 2017 08:03:42: 5000000 INFO @ Wed, 28 Jun 2017 08:03:42: 5000000 INFO @ Wed, 28 Jun 2017 08:03:42: 5000000 INFO @ Wed, 28 Jun 2017 08:03:51: 6000000 INFO @ Wed, 28 Jun 2017 08:03:51: 6000000 INFO @ Wed, 28 Jun 2017 08:03:51: 6000000 INFO @ Wed, 28 Jun 2017 08:04:00: 7000000 INFO @ Wed, 28 Jun 2017 08:04:00: 7000000 INFO @ Wed, 28 Jun 2017 08:04:00: 7000000 INFO @ Wed, 28 Jun 2017 08:04:08: 8000000 INFO @ Wed, 28 Jun 2017 08:04:09: 8000000 INFO @ Wed, 28 Jun 2017 08:04:09: 8000000 INFO @ Wed, 28 Jun 2017 08:04:17: 9000000 INFO @ Wed, 28 Jun 2017 08:04:19: 9000000 INFO @ Wed, 28 Jun 2017 08:04:19: 9000000 INFO @ Wed, 28 Jun 2017 08:04:26: 10000000 INFO @ Wed, 28 Jun 2017 08:04:28: 10000000 INFO @ Wed, 28 Jun 2017 08:04:28: 10000000 INFO @ Wed, 28 Jun 2017 08:04:34: 11000000 INFO @ Wed, 28 Jun 2017 08:04:37: 11000000 INFO @ Wed, 28 Jun 2017 08:04:37: 11000000 INFO @ Wed, 28 Jun 2017 08:04:43: 12000000 INFO @ Wed, 28 Jun 2017 08:04:46: 12000000 INFO @ Wed, 28 Jun 2017 08:04:46: 12000000 INFO @ Wed, 28 Jun 2017 08:04:52: 13000000 INFO @ Wed, 28 Jun 2017 08:04:55: 13000000 INFO @ Wed, 28 Jun 2017 08:04:55: 13000000 INFO @ Wed, 28 Jun 2017 08:05:00: 14000000 INFO @ Wed, 28 Jun 2017 08:05:05: 14000000 INFO @ Wed, 28 Jun 2017 08:05:05: 14000000 INFO @ Wed, 28 Jun 2017 08:05:09: 15000000 INFO @ Wed, 28 Jun 2017 08:05:14: 15000000 INFO @ Wed, 28 Jun 2017 08:05:14: 15000000 INFO @ Wed, 28 Jun 2017 08:05:18: 16000000 INFO @ Wed, 28 Jun 2017 08:05:23: 16000000 INFO @ Wed, 28 Jun 2017 08:05:23: 16000000 INFO @ Wed, 28 Jun 2017 08:05:25: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:05:25: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:05:25: #1 total tags in treatment: 7883332 INFO @ Wed, 28 Jun 2017 08:05:25: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:05:25: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 08:05:25: #1 tags after filtering in treatment: 4818669 INFO @ Wed, 28 Jun 2017 08:05:25: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 28 Jun 2017 08:05:25: #1 finished! INFO @ Wed, 28 Jun 2017 08:05:25: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:05:25: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:05:25: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:05:25: 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 @ Wed, 28 Jun 2017 08:05:25: Process for pairing-model is terminated! cat: SRX2457694.10_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): 10 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2457694.10_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 `SRX2457694.10_*.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 `SRX2457694.10_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 @ Wed, 28 Jun 2017 08:05:30: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:05:30: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:05:30: #1 total tags in treatment: 7883332 INFO @ Wed, 28 Jun 2017 08:05:30: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:05:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 08:05:30: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:05:30: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:05:30: #1 total tags in treatment: 7883332 INFO @ Wed, 28 Jun 2017 08:05:30: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:05:30: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 08:05:30: #1 tags after filtering in treatment: 4818669 INFO @ Wed, 28 Jun 2017 08:05:30: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 28 Jun 2017 08:05:30: #1 finished! INFO @ Wed, 28 Jun 2017 08:05:30: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:05:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:05:30: #1 tags after filtering in treatment: 4818669 INFO @ Wed, 28 Jun 2017 08:05:30: #1 Redundant rate of treatment: 0.39 INFO @ Wed, 28 Jun 2017 08:05:30: #1 finished! INFO @ Wed, 28 Jun 2017 08:05:30: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:05:30: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:05:30: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:05:30: 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 @ Wed, 28 Jun 2017 08:05:30: Process for pairing-model is terminated! cat: SRX2457694.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Wed, 28 Jun 2017 08:05:30: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:05:30: 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 @ Wed, 28 Jun 2017 08:05:30: Process for pairing-model is terminated! pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2457694.20_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 `SRX2457694.20_*.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 `SRX2457694.20_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 cat: SRX2457694.05_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 `SRX2457694.05_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 `SRX2457694.05_*.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 `SRX2457694.05_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。