Job ID = 9162410 sra ファイルのダウンロード中... Completed: 1657347K bytes transferred in 25 seconds (529694K 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 11671398 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2457690/SRR5138805.sra Written 11671398 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: 00:14:33 11671398 reads; of these: 11671398 (100.00%) were paired; of these: 1900624 (16.28%) aligned concordantly 0 times 9225469 (79.04%) aligned concordantly exactly 1 time 545305 (4.67%) aligned concordantly >1 times ---- 1900624 pairs aligned concordantly 0 times; of these: 661293 (34.79%) aligned discordantly 1 time ---- 1239331 pairs aligned 0 times concordantly or discordantly; of these: 2478662 mates make up the pairs; of these: 1383094 (55.80%) aligned 0 times 963213 (38.86%) aligned exactly 1 time 132355 (5.34%) aligned >1 times 94.07% overall alignment rate Time searching: 00:14:33 Overall time: 00:14:33 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] 1150943 / 10316410 = 0.1116 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 08:06:58: # Command line: callpeak -t SRX2457690.bam -f BAM -g 12100000 -n SRX2457690.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2457690.05 # format = BAM # ChIP-seq file = ['SRX2457690.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 08:06:58: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:06:58: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:06:58: # Command line: callpeak -t SRX2457690.bam -f BAM -g 12100000 -n SRX2457690.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2457690.10 # format = BAM # ChIP-seq file = ['SRX2457690.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 08:06:58: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:06:58: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:06:58: # Command line: callpeak -t SRX2457690.bam -f BAM -g 12100000 -n SRX2457690.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2457690.20 # format = BAM # ChIP-seq file = ['SRX2457690.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 08:06:58: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:06:58: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:07:09: 1000000 INFO @ Wed, 28 Jun 2017 08:07:09: 1000000 INFO @ Wed, 28 Jun 2017 08:07:09: 1000000 INFO @ Wed, 28 Jun 2017 08:07:20: 2000000 INFO @ Wed, 28 Jun 2017 08:07:20: 2000000 INFO @ Wed, 28 Jun 2017 08:07:20: 2000000 INFO @ Wed, 28 Jun 2017 08:07:30: 3000000 INFO @ Wed, 28 Jun 2017 08:07:30: 3000000 INFO @ Wed, 28 Jun 2017 08:07:30: 3000000 INFO @ Wed, 28 Jun 2017 08:07:41: 4000000 INFO @ Wed, 28 Jun 2017 08:07:41: 4000000 INFO @ Wed, 28 Jun 2017 08:07:41: 4000000 INFO @ Wed, 28 Jun 2017 08:07:52: 5000000 INFO @ Wed, 28 Jun 2017 08:07:52: 5000000 INFO @ Wed, 28 Jun 2017 08:07:52: 5000000 INFO @ Wed, 28 Jun 2017 08:08:02: 6000000 INFO @ Wed, 28 Jun 2017 08:08:02: 6000000 INFO @ Wed, 28 Jun 2017 08:08:02: 6000000 INFO @ Wed, 28 Jun 2017 08:08:11: 7000000 INFO @ Wed, 28 Jun 2017 08:08:12: 7000000 INFO @ Wed, 28 Jun 2017 08:08:12: 7000000 INFO @ Wed, 28 Jun 2017 08:08:19: 8000000 INFO @ Wed, 28 Jun 2017 08:08:22: 8000000 INFO @ Wed, 28 Jun 2017 08:08:22: 8000000 INFO @ Wed, 28 Jun 2017 08:08:28: 9000000 INFO @ Wed, 28 Jun 2017 08:08:31: 9000000 INFO @ Wed, 28 Jun 2017 08:08:31: 9000000 INFO @ Wed, 28 Jun 2017 08:08:37: 10000000 INFO @ Wed, 28 Jun 2017 08:08:41: 10000000 INFO @ Wed, 28 Jun 2017 08:08:41: 10000000 INFO @ Wed, 28 Jun 2017 08:08:45: 11000000 INFO @ Wed, 28 Jun 2017 08:08:50: 11000000 INFO @ Wed, 28 Jun 2017 08:08:50: 11000000 INFO @ Wed, 28 Jun 2017 08:08:54: 12000000 INFO @ Wed, 28 Jun 2017 08:09:00: 12000000 INFO @ Wed, 28 Jun 2017 08:09:00: 12000000 INFO @ Wed, 28 Jun 2017 08:09:03: 13000000 INFO @ Wed, 28 Jun 2017 08:09:09: 13000000 INFO @ Wed, 28 Jun 2017 08:09:09: 13000000 INFO @ Wed, 28 Jun 2017 08:09:12: 14000000 INFO @ Wed, 28 Jun 2017 08:09:19: 14000000 INFO @ Wed, 28 Jun 2017 08:09:19: 14000000 INFO @ Wed, 28 Jun 2017 08:09:20: 15000000 INFO @ Wed, 28 Jun 2017 08:09:28: 15000000 INFO @ Wed, 28 Jun 2017 08:09:28: 15000000 INFO @ Wed, 28 Jun 2017 08:09:29: 16000000 INFO @ Wed, 28 Jun 2017 08:09:37: 16000000 INFO @ Wed, 28 Jun 2017 08:09:37: 16000000 INFO @ Wed, 28 Jun 2017 08:09:37: 17000000 INFO @ Wed, 28 Jun 2017 08:09:45: 17000000 INFO @ Wed, 28 Jun 2017 08:09:45: 17000000 INFO @ Wed, 28 Jun 2017 08:09:46: 18000000 INFO @ Wed, 28 Jun 2017 08:09:53: 18000000 INFO @ Wed, 28 Jun 2017 08:09:53: 18000000 INFO @ Wed, 28 Jun 2017 08:09:55: 19000000 INFO @ Wed, 28 Jun 2017 08:10:00: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:10:00: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:10:00: #1 total tags in treatment: 8656068 INFO @ Wed, 28 Jun 2017 08:10:00: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:10:00: #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 08:10:00: #1 tags after filtering in treatment: 4483820 INFO @ Wed, 28 Jun 2017 08:10:00: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 28 Jun 2017 08:10:00: #1 finished! INFO @ Wed, 28 Jun 2017 08:10:00: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:10:00: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:10:01: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:10:01: 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 08:10:01: Process for pairing-model is terminated! cat: SRX2457690.20_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 needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2457690.20_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 `SRX2457690.20_*.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 `SRX2457690.20_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 @ Wed, 28 Jun 2017 08:10:01: 19000000 INFO @ Wed, 28 Jun 2017 08:10:02: 19000000 INFO @ Wed, 28 Jun 2017 08:10:07: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:10:07: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:10:07: #1 total tags in treatment: 8656068 INFO @ Wed, 28 Jun 2017 08:10:07: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:10:07: #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 08:10:07: #1 tags after filtering in treatment: 4483820 INFO @ Wed, 28 Jun 2017 08:10:07: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 28 Jun 2017 08:10:07: #1 finished! INFO @ Wed, 28 Jun 2017 08:10:07: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:10:07: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:10:07: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:10:07: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:10:07: #1 total tags in treatment: 8656068 INFO @ Wed, 28 Jun 2017 08:10:07: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:10:07: #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 08:10:08: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:10:08: 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 08:10:08: Process for pairing-model is terminated! cat: SRX2457690.05_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 `SRX2457690.05_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 `SRX2457690.05_*.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 `SRX2457690.05_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 INFO @ Wed, 28 Jun 2017 08:10:08: #1 tags after filtering in treatment: 4483820 INFO @ Wed, 28 Jun 2017 08:10:08: #1 Redundant rate of treatment: 0.48 INFO @ Wed, 28 Jun 2017 08:10:08: #1 finished! INFO @ Wed, 28 Jun 2017 08:10:08: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:10:08: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:10:08: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:10:08: 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 08:10:08: Process for pairing-model is terminated! cat: SRX2457690.10_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 `SRX2457690.10_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 `SRX2457690.10_*.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 `SRX2457690.10_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。