Job ID = 9162444 sra ファイルのダウンロード中... Completed: 540183K bytes transferred in 7 seconds (577117K 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 9150808 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2518697/SRR5204807.sra Written 9150808 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: 00:07:31 9150808 reads; of these: 9150808 (100.00%) were paired; of these: 300984 (3.29%) aligned concordantly 0 times 7758453 (84.78%) aligned concordantly exactly 1 time 1091371 (11.93%) aligned concordantly >1 times ---- 300984 pairs aligned concordantly 0 times; of these: 1723 (0.57%) aligned discordantly 1 time ---- 299261 pairs aligned 0 times concordantly or discordantly; of these: 598522 mates make up the pairs; of these: 587173 (98.10%) aligned 0 times 8343 (1.39%) aligned exactly 1 time 3006 (0.50%) aligned >1 times 96.79% overall alignment rate Time searching: 00:07:31 Overall time: 00:07:31 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] 569786 / 8850078 = 0.0644 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 08:01:53: # Command line: callpeak -t SRX2518697.bam -f BAM -g 12100000 -n SRX2518697.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2518697.20 # format = BAM # ChIP-seq file = ['SRX2518697.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 08:01:53: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:01:53: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:01:53: # Command line: callpeak -t SRX2518697.bam -f BAM -g 12100000 -n SRX2518697.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2518697.10 # format = BAM # ChIP-seq file = ['SRX2518697.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 08:01:53: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:01:53: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:01:53: # Command line: callpeak -t SRX2518697.bam -f BAM -g 12100000 -n SRX2518697.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2518697.05 # format = BAM # ChIP-seq file = ['SRX2518697.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 08:01:53: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:01:53: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:01:59: 1000000 INFO @ Wed, 28 Jun 2017 08:02:01: 1000000 INFO @ Wed, 28 Jun 2017 08:02:01: 1000000 INFO @ Wed, 28 Jun 2017 08:02:06: 2000000 INFO @ Wed, 28 Jun 2017 08:02:09: 2000000 INFO @ Wed, 28 Jun 2017 08:02:09: 2000000 INFO @ Wed, 28 Jun 2017 08:02:12: 3000000 INFO @ Wed, 28 Jun 2017 08:02:17: 3000000 INFO @ Wed, 28 Jun 2017 08:02:17: 3000000 INFO @ Wed, 28 Jun 2017 08:02:19: 4000000 INFO @ Wed, 28 Jun 2017 08:02:25: 5000000 INFO @ Wed, 28 Jun 2017 08:02:25: 4000000 INFO @ Wed, 28 Jun 2017 08:02:25: 4000000 INFO @ Wed, 28 Jun 2017 08:02:31: 6000000 INFO @ Wed, 28 Jun 2017 08:02:33: 5000000 INFO @ Wed, 28 Jun 2017 08:02:33: 5000000 INFO @ Wed, 28 Jun 2017 08:02:37: 7000000 INFO @ Wed, 28 Jun 2017 08:02:41: 6000000 INFO @ Wed, 28 Jun 2017 08:02:41: 6000000 INFO @ Wed, 28 Jun 2017 08:02:43: 8000000 INFO @ Wed, 28 Jun 2017 08:02:49: 7000000 INFO @ Wed, 28 Jun 2017 08:02:49: 7000000 INFO @ Wed, 28 Jun 2017 08:02:51: 9000000 INFO @ Wed, 28 Jun 2017 08:02:58: 8000000 INFO @ Wed, 28 Jun 2017 08:02:58: 8000000 INFO @ Wed, 28 Jun 2017 08:02:58: 10000000 INFO @ Wed, 28 Jun 2017 08:03:05: 11000000 INFO @ Wed, 28 Jun 2017 08:03:06: 9000000 INFO @ Wed, 28 Jun 2017 08:03:06: 9000000 INFO @ Wed, 28 Jun 2017 08:03:11: 12000000 INFO @ Wed, 28 Jun 2017 08:03:14: 10000000 INFO @ Wed, 28 Jun 2017 08:03:14: 10000000 INFO @ Wed, 28 Jun 2017 08:03:17: 13000000 INFO @ Wed, 28 Jun 2017 08:03:22: 11000000 INFO @ Wed, 28 Jun 2017 08:03:22: 11000000 INFO @ Wed, 28 Jun 2017 08:03:23: 14000000 INFO @ Wed, 28 Jun 2017 08:03:29: 12000000 INFO @ Wed, 28 Jun 2017 08:03:29: 12000000 INFO @ Wed, 28 Jun 2017 08:03:30: 15000000 INFO @ Wed, 28 Jun 2017 08:03:36: 16000000 INFO @ Wed, 28 Jun 2017 08:03:37: 13000000 INFO @ Wed, 28 Jun 2017 08:03:37: 13000000 INFO @ Wed, 28 Jun 2017 08:03:39: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 08:03:39: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 08:03:39: #1 total tags in treatment: 8280049 INFO @ Wed, 28 Jun 2017 08:03:39: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:03:39: #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 08:03:40: #1 tags after filtering in treatment: 5094394 INFO @ Wed, 28 Jun 2017 08:03:40: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 28 Jun 2017 08:03:40: #1 finished! INFO @ Wed, 28 Jun 2017 08:03:40: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:03:40: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:03:40: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:03:40: 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 @ Wed, 28 Jun 2017 08:03:40: Process for pairing-model is terminated! cat: SRX2518697.20_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 `SRX2518697.20_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 `SRX2518697.20_*.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 `SRX2518697.20_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 08:03:45: 14000000 INFO @ Wed, 28 Jun 2017 08:03:45: 14000000 INFO @ Wed, 28 Jun 2017 08:03:53: 15000000 INFO @ Wed, 28 Jun 2017 08:03:53: 15000000 INFO @ Wed, 28 Jun 2017 08:04:01: 16000000 INFO @ Wed, 28 Jun 2017 08:04:01: 16000000 INFO @ Wed, 28 Jun 2017 08:04:06: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 08:04:06: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 08:04:06: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 08:04:06: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 08:04:06: #1 total tags in treatment: 8280049 INFO @ Wed, 28 Jun 2017 08:04:06: #1 total tags in treatment: 8280049 INFO @ Wed, 28 Jun 2017 08:04:06: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:04:06: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:04:06: #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 08:04:06: #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 08:04:06: #1 tags after filtering in treatment: 5094394 INFO @ Wed, 28 Jun 2017 08:04:06: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 28 Jun 2017 08:04:06: #1 finished! INFO @ Wed, 28 Jun 2017 08:04:06: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:04:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:04:06: #1 tags after filtering in treatment: 5094394 INFO @ Wed, 28 Jun 2017 08:04:06: #1 Redundant rate of treatment: 0.38 INFO @ Wed, 28 Jun 2017 08:04:06: #1 finished! INFO @ Wed, 28 Jun 2017 08:04:06: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:04:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:04:06: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:04:06: 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 08:04:06: Process for pairing-model is terminated! INFO @ Wed, 28 Jun 2017 08:04:06: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:04:06: 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 08:04:06: Process for pairing-model is terminated! cat: SRX2518697.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX2518697.05_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 `SRX2518697.10_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 `SRX2518697.10_*.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 `SRX2518697.10_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2518697.05_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 `SRX2518697.05_*.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 `SRX2518697.05_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。