Job ID = 9161985 sra ファイルのダウンロード中... Completed: 1285334K bytes transferred in 14 seconds (704993K 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 20262851 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1423717/SRR2931006.sra Written 20262851 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: 00:15:53 20262851 reads; of these: 20262851 (100.00%) were paired; of these: 2754019 (13.59%) aligned concordantly 0 times 14948822 (73.77%) aligned concordantly exactly 1 time 2560010 (12.63%) aligned concordantly >1 times ---- 2754019 pairs aligned concordantly 0 times; of these: 61673 (2.24%) aligned discordantly 1 time ---- 2692346 pairs aligned 0 times concordantly or discordantly; of these: 5384692 mates make up the pairs; of these: 5241991 (97.35%) aligned 0 times 92562 (1.72%) aligned exactly 1 time 50139 (0.93%) aligned >1 times 87.07% overall alignment rate Time searching: 00:15:53 Overall time: 00:15:53 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 16 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] 8859308 / 17542267 = 0.5050 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 05:35:16: # Command line: callpeak -t SRX1423717.bam -f BAM -g 12100000 -n SRX1423717.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1423717.10 # format = BAM # ChIP-seq file = ['SRX1423717.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 05:35:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:35:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:35:16: # Command line: callpeak -t SRX1423717.bam -f BAM -g 12100000 -n SRX1423717.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1423717.20 # format = BAM # ChIP-seq file = ['SRX1423717.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 05:35:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:35:16: # Command line: callpeak -t SRX1423717.bam -f BAM -g 12100000 -n SRX1423717.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1423717.05 # format = BAM # ChIP-seq file = ['SRX1423717.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 05:35:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:35:16: #1 read tag files... INFO @ Wed, 28 Jun 2017 05:35:16: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 05:35:23: 1000000 INFO @ Wed, 28 Jun 2017 05:35:23: 1000000 INFO @ Wed, 28 Jun 2017 05:35:23: 1000000 INFO @ Wed, 28 Jun 2017 05:35:30: 2000000 INFO @ Wed, 28 Jun 2017 05:35:30: 2000000 INFO @ Wed, 28 Jun 2017 05:35:30: 2000000 INFO @ Wed, 28 Jun 2017 05:35:37: 3000000 INFO @ Wed, 28 Jun 2017 05:35:37: 3000000 INFO @ Wed, 28 Jun 2017 05:35:37: 3000000 INFO @ Wed, 28 Jun 2017 05:35:44: 4000000 INFO @ Wed, 28 Jun 2017 05:35:44: 4000000 INFO @ Wed, 28 Jun 2017 05:35:44: 4000000 INFO @ Wed, 28 Jun 2017 05:35:50: 5000000 INFO @ Wed, 28 Jun 2017 05:35:51: 5000000 INFO @ Wed, 28 Jun 2017 05:35:51: 5000000 INFO @ Wed, 28 Jun 2017 05:35:55: 6000000 INFO @ Wed, 28 Jun 2017 05:35:56: 6000000 INFO @ Wed, 28 Jun 2017 05:35:57: 6000000 INFO @ Wed, 28 Jun 2017 05:36:01: 7000000 INFO @ Wed, 28 Jun 2017 05:36:02: 7000000 INFO @ Wed, 28 Jun 2017 05:36:02: 7000000 INFO @ Wed, 28 Jun 2017 05:36:06: 8000000 INFO @ Wed, 28 Jun 2017 05:36:08: 8000000 INFO @ Wed, 28 Jun 2017 05:36:08: 8000000 INFO @ Wed, 28 Jun 2017 05:36:11: 9000000 INFO @ Wed, 28 Jun 2017 05:36:13: 9000000 INFO @ Wed, 28 Jun 2017 05:36:14: 9000000 INFO @ Wed, 28 Jun 2017 05:36:16: 10000000 INFO @ Wed, 28 Jun 2017 05:36:19: 10000000 INFO @ Wed, 28 Jun 2017 05:36:20: 10000000 INFO @ Wed, 28 Jun 2017 05:36:22: 11000000 INFO @ Wed, 28 Jun 2017 05:36:25: 11000000 INFO @ Wed, 28 Jun 2017 05:36:26: 11000000 INFO @ Wed, 28 Jun 2017 05:36:27: 12000000 INFO @ Wed, 28 Jun 2017 05:36:31: 12000000 INFO @ Wed, 28 Jun 2017 05:36:32: 13000000 INFO @ Wed, 28 Jun 2017 05:36:32: 12000000 INFO @ Wed, 28 Jun 2017 05:36:36: 13000000 INFO @ Wed, 28 Jun 2017 05:36:37: 14000000 INFO @ Wed, 28 Jun 2017 05:36:38: 13000000 INFO @ Wed, 28 Jun 2017 05:36:42: 14000000 INFO @ Wed, 28 Jun 2017 05:36:43: 15000000 INFO @ Wed, 28 Jun 2017 05:36:44: 14000000 INFO @ Wed, 28 Jun 2017 05:36:48: 16000000 INFO @ Wed, 28 Jun 2017 05:36:48: 15000000 INFO @ Wed, 28 Jun 2017 05:36:50: 15000000 INFO @ Wed, 28 Jun 2017 05:36:53: 17000000 INFO @ Wed, 28 Jun 2017 05:36:54: 16000000 INFO @ Wed, 28 Jun 2017 05:36:56: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:36:56: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:36:56: #1 total tags in treatment: 8683967 INFO @ Wed, 28 Jun 2017 05:36:56: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:36:56: #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 05:36:56: #1 tags after filtering in treatment: 5951537 INFO @ Wed, 28 Jun 2017 05:36:56: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 28 Jun 2017 05:36:56: #1 finished! INFO @ Wed, 28 Jun 2017 05:36:56: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:36:56: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:36:56: 16000000 INFO @ Wed, 28 Jun 2017 05:36:57: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:36:57: 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 05:36:57: Process for pairing-model is terminated! cat: SRX1423717.20_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 `SRX1423717.20_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 `SRX1423717.20_*.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 `SRX1423717.20_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 05:36:59: 17000000 INFO @ Wed, 28 Jun 2017 05:37:02: 17000000 INFO @ Wed, 28 Jun 2017 05:37:03: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:37:03: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:37:03: #1 total tags in treatment: 8683967 INFO @ Wed, 28 Jun 2017 05:37:03: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:37:03: #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 05:37:03: #1 tags after filtering in treatment: 5951537 INFO @ Wed, 28 Jun 2017 05:37:03: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 28 Jun 2017 05:37:03: #1 finished! INFO @ Wed, 28 Jun 2017 05:37:03: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:37:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:37:03: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:37:03: 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 05:37:03: Process for pairing-model is terminated! cat: SRX1423717.05_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 `SRX1423717.05_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 `SRX1423717.05_*.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 `SRX1423717.05_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 05:37:06: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 05:37:06: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 05:37:06: #1 total tags in treatment: 8683967 INFO @ Wed, 28 Jun 2017 05:37:06: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 05:37:06: #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 05:37:06: #1 tags after filtering in treatment: 5951537 INFO @ Wed, 28 Jun 2017 05:37:06: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 28 Jun 2017 05:37:06: #1 finished! INFO @ Wed, 28 Jun 2017 05:37:06: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 05:37:06: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 05:37:06: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 05:37:06: 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 05:37:06: Process for pairing-model is terminated! cat: SRX1423717.10_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 `SRX1423717.10_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 `SRX1423717.10_*.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 `SRX1423717.10_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。