Job ID = 9162447 sra ファイルのダウンロード中... Completed: 616677K bytes transferred in 7 seconds (641969K 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 10597819 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2518700/SRR5204810.sra Written 10597819 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: 00:08:45 10597819 reads; of these: 10597819 (100.00%) were paired; of these: 380499 (3.59%) aligned concordantly 0 times 8915453 (84.13%) aligned concordantly exactly 1 time 1301867 (12.28%) aligned concordantly >1 times ---- 380499 pairs aligned concordantly 0 times; of these: 1675 (0.44%) aligned discordantly 1 time ---- 378824 pairs aligned 0 times concordantly or discordantly; of these: 757648 mates make up the pairs; of these: 742971 (98.06%) aligned 0 times 9558 (1.26%) aligned exactly 1 time 5119 (0.68%) aligned >1 times 96.49% overall alignment rate Time searching: 00:08:45 Overall time: 00:08:45 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] 267825 / 10218163 = 0.0262 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 08:05:52: # Command line: callpeak -t SRX2518700.bam -f BAM -g 12100000 -n SRX2518700.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2518700.05 # format = BAM # ChIP-seq file = ['SRX2518700.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 08:05:52: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:05:52: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:05:52: # Command line: callpeak -t SRX2518700.bam -f BAM -g 12100000 -n SRX2518700.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2518700.20 # format = BAM # ChIP-seq file = ['SRX2518700.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 08:05:52: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:05:52: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:05:52: # Command line: callpeak -t SRX2518700.bam -f BAM -g 12100000 -n SRX2518700.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2518700.10 # format = BAM # ChIP-seq file = ['SRX2518700.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 08:05:52: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:05:52: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:05:58: 1000000 INFO @ Wed, 28 Jun 2017 08:05:58: 1000000 INFO @ Wed, 28 Jun 2017 08:05:59: 1000000 INFO @ Wed, 28 Jun 2017 08:06:04: 2000000 INFO @ Wed, 28 Jun 2017 08:06:04: 2000000 INFO @ Wed, 28 Jun 2017 08:06:05: 2000000 INFO @ Wed, 28 Jun 2017 08:06:09: 3000000 INFO @ Wed, 28 Jun 2017 08:06:09: 3000000 INFO @ Wed, 28 Jun 2017 08:06:10: 3000000 INFO @ Wed, 28 Jun 2017 08:06:14: 4000000 INFO @ Wed, 28 Jun 2017 08:06:14: 4000000 INFO @ Wed, 28 Jun 2017 08:06:15: 4000000 INFO @ Wed, 28 Jun 2017 08:06:20: 5000000 INFO @ Wed, 28 Jun 2017 08:06:20: 5000000 INFO @ Wed, 28 Jun 2017 08:06:21: 5000000 INFO @ Wed, 28 Jun 2017 08:06:25: 6000000 INFO @ Wed, 28 Jun 2017 08:06:25: 6000000 INFO @ Wed, 28 Jun 2017 08:06:26: 6000000 INFO @ Wed, 28 Jun 2017 08:06:30: 7000000 INFO @ Wed, 28 Jun 2017 08:06:30: 7000000 INFO @ Wed, 28 Jun 2017 08:06:32: 7000000 INFO @ Wed, 28 Jun 2017 08:06:35: 8000000 INFO @ Wed, 28 Jun 2017 08:06:35: 8000000 INFO @ Wed, 28 Jun 2017 08:06:38: 8000000 INFO @ Wed, 28 Jun 2017 08:06:41: 9000000 INFO @ Wed, 28 Jun 2017 08:06:41: 9000000 INFO @ Wed, 28 Jun 2017 08:06:44: 9000000 INFO @ Wed, 28 Jun 2017 08:06:46: 10000000 INFO @ Wed, 28 Jun 2017 08:06:48: 10000000 INFO @ Wed, 28 Jun 2017 08:06:50: 10000000 INFO @ Wed, 28 Jun 2017 08:06:51: 11000000 INFO @ Wed, 28 Jun 2017 08:06:55: 11000000 INFO @ Wed, 28 Jun 2017 08:06:56: 12000000 INFO @ Wed, 28 Jun 2017 08:06:57: 11000000 INFO @ Wed, 28 Jun 2017 08:07:01: 13000000 INFO @ Wed, 28 Jun 2017 08:07:02: 12000000 INFO @ Wed, 28 Jun 2017 08:07:03: 12000000 INFO @ Wed, 28 Jun 2017 08:07:06: 14000000 INFO @ Wed, 28 Jun 2017 08:07:08: 13000000 INFO @ Wed, 28 Jun 2017 08:07:09: 13000000 INFO @ Wed, 28 Jun 2017 08:07:12: 15000000 INFO @ Wed, 28 Jun 2017 08:07:15: 14000000 INFO @ Wed, 28 Jun 2017 08:07:15: 14000000 INFO @ Wed, 28 Jun 2017 08:07:17: 16000000 INFO @ Wed, 28 Jun 2017 08:07:20: 15000000 INFO @ Wed, 28 Jun 2017 08:07:21: 15000000 INFO @ Wed, 28 Jun 2017 08:07:23: 17000000 INFO @ Wed, 28 Jun 2017 08:07:26: 16000000 INFO @ Wed, 28 Jun 2017 08:07:27: 16000000 INFO @ Wed, 28 Jun 2017 08:07:28: 18000000 INFO @ Wed, 28 Jun 2017 08:07:32: 17000000 INFO @ Wed, 28 Jun 2017 08:07:32: 17000000 INFO @ Wed, 28 Jun 2017 08:07:34: 19000000 INFO @ Wed, 28 Jun 2017 08:07:38: 18000000 INFO @ Wed, 28 Jun 2017 08:07:38: 18000000 INFO @ Wed, 28 Jun 2017 08:07:39: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 08:07:39: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 08:07:39: #1 total tags in treatment: 9949504 INFO @ Wed, 28 Jun 2017 08:07:39: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:07:39: #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 08:07:39: #1 tags after filtering in treatment: 7688755 INFO @ Wed, 28 Jun 2017 08:07:39: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 28 Jun 2017 08:07:39: #1 finished! INFO @ Wed, 28 Jun 2017 08:07:39: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:07:39: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:07:40: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:07:40: 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 08:07:40: Process for pairing-model is terminated! cat: SRX2518700.20_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 `SRX2518700.20_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 `SRX2518700.20_*.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 `SRX2518700.20_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 08:07:43: 19000000 INFO @ Wed, 28 Jun 2017 08:07:43: 19000000 INFO @ Wed, 28 Jun 2017 08:07:48: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 08:07:48: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 08:07:48: #1 total tags in treatment: 9949504 INFO @ Wed, 28 Jun 2017 08:07:48: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:07:48: #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 08:07:48: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 08:07:48: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 08:07:48: #1 total tags in treatment: 9949504 INFO @ Wed, 28 Jun 2017 08:07:48: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:07:48: #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 08:07:48: #1 tags after filtering in treatment: 7688755 INFO @ Wed, 28 Jun 2017 08:07:48: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 28 Jun 2017 08:07:48: #1 finished! INFO @ Wed, 28 Jun 2017 08:07:48: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:07:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:07:48: #1 tags after filtering in treatment: 7688755 INFO @ Wed, 28 Jun 2017 08:07:48: #1 Redundant rate of treatment: 0.23 INFO @ Wed, 28 Jun 2017 08:07:48: #1 finished! INFO @ Wed, 28 Jun 2017 08:07:48: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:07:48: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:07:49: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:07:49: 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 @ Wed, 28 Jun 2017 08:07:49: Process for pairing-model is terminated! cat: SRX2518700.05_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 `SRX2518700.05_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 `SRX2518700.05_*.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 `SRX2518700.05_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 08:07:49: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:07:49: 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 @ Wed, 28 Jun 2017 08:07:49: Process for pairing-model is terminated! cat: SRX2518700.10_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 `SRX2518700.10_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 `SRX2518700.10_*.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 `SRX2518700.10_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。