Job ID = 10845223 sra ファイルのダウンロード中... Completed: 876219K bytes transferred in 49 seconds (143812K bits/sec), in 1 file. 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... Read 16496946 spots for /home/okishinya/chipatlas/results/dm3/SRX3632921/SRR6655573.sra Written 16496946 spots for /home/okishinya/chipatlas/results/dm3/SRX3632921/SRR6655573.sra rm: cannot remove `[DSE]RX*': 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 `[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: 00:29:08 16496946 reads; of these: 16496946 (100.00%) were paired; of these: 1114692 (6.76%) aligned concordantly 0 times 13578933 (82.31%) aligned concordantly exactly 1 time 1803321 (10.93%) aligned concordantly >1 times ---- 1114692 pairs aligned concordantly 0 times; of these: 338949 (30.41%) aligned discordantly 1 time ---- 775743 pairs aligned 0 times concordantly or discordantly; of these: 1551486 mates make up the pairs; of these: 829621 (53.47%) aligned 0 times 503068 (32.42%) aligned exactly 1 time 218797 (14.10%) aligned >1 times 97.49% overall alignment rate Time searching: 00:29:08 Overall time: 00:29:08 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 16 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 1025914 / 15626863 = 0.0657 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, 04 Jul 2018 10:10:03: # Command line: callpeak -t SRX3632921.bam -f BAM -g dm -n SRX3632921.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3632921.10 # format = BAM # ChIP-seq file = ['SRX3632921.bam'] # control file = None # effective genome size = 1.20e+08 # 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, 04 Jul 2018 10:10:03: #1 read tag files... INFO @ Wed, 04 Jul 2018 10:10:03: #1 read treatment tags... INFO @ Wed, 04 Jul 2018 10:10:03: # Command line: callpeak -t SRX3632921.bam -f BAM -g dm -n SRX3632921.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3632921.05 # format = BAM # ChIP-seq file = ['SRX3632921.bam'] # control file = None # effective genome size = 1.20e+08 # 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, 04 Jul 2018 10:10:03: #1 read tag files... INFO @ Wed, 04 Jul 2018 10:10:03: #1 read treatment tags... INFO @ Wed, 04 Jul 2018 10:10:03: # Command line: callpeak -t SRX3632921.bam -f BAM -g dm -n SRX3632921.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3632921.20 # format = BAM # ChIP-seq file = ['SRX3632921.bam'] # control file = None # effective genome size = 1.20e+08 # 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, 04 Jul 2018 10:10:03: #1 read tag files... INFO @ Wed, 04 Jul 2018 10:10:03: #1 read treatment tags... INFO @ Wed, 04 Jul 2018 10:10:09: 1000000 INFO @ Wed, 04 Jul 2018 10:10:09: 1000000 INFO @ Wed, 04 Jul 2018 10:10:09: 1000000 INFO @ Wed, 04 Jul 2018 10:10:15: 2000000 INFO @ Wed, 04 Jul 2018 10:10:15: 2000000 INFO @ Wed, 04 Jul 2018 10:10:15: 2000000 INFO @ Wed, 04 Jul 2018 10:10:20: 3000000 INFO @ Wed, 04 Jul 2018 10:10:21: 3000000 INFO @ Wed, 04 Jul 2018 10:10:21: 3000000 INFO @ Wed, 04 Jul 2018 10:10:26: 4000000 INFO @ Wed, 04 Jul 2018 10:10:27: 4000000 INFO @ Wed, 04 Jul 2018 10:10:28: 4000000 INFO @ Wed, 04 Jul 2018 10:10:32: 5000000 INFO @ Wed, 04 Jul 2018 10:10:33: 5000000 INFO @ Wed, 04 Jul 2018 10:10:34: 5000000 INFO @ Wed, 04 Jul 2018 10:10:38: 6000000 INFO @ Wed, 04 Jul 2018 10:10:39: 6000000 INFO @ Wed, 04 Jul 2018 10:10:41: 6000000 INFO @ Wed, 04 Jul 2018 10:10:43: 7000000 INFO @ Wed, 04 Jul 2018 10:10:45: 7000000 INFO @ Wed, 04 Jul 2018 10:10:47: 7000000 INFO @ Wed, 04 Jul 2018 10:10:49: 8000000 INFO @ Wed, 04 Jul 2018 10:10:51: 8000000 INFO @ Wed, 04 Jul 2018 10:10:53: 8000000 INFO @ Wed, 04 Jul 2018 10:10:55: 9000000 INFO @ Wed, 04 Jul 2018 10:10:57: 9000000 INFO @ Wed, 04 Jul 2018 10:11:00: 9000000 INFO @ Wed, 04 Jul 2018 10:11:00: 10000000 INFO @ Wed, 04 Jul 2018 10:11:03: 10000000 INFO @ Wed, 04 Jul 2018 10:11:06: 11000000 INFO @ Wed, 04 Jul 2018 10:11:06: 10000000 INFO @ Wed, 04 Jul 2018 10:11:09: 11000000 INFO @ Wed, 04 Jul 2018 10:11:12: 12000000 INFO @ Wed, 04 Jul 2018 10:11:13: 11000000 INFO @ Wed, 04 Jul 2018 10:11:15: 12000000 INFO @ Wed, 04 Jul 2018 10:11:17: 13000000 INFO @ Wed, 04 Jul 2018 10:11:19: 12000000 INFO @ Wed, 04 Jul 2018 10:11:21: 13000000 INFO @ Wed, 04 Jul 2018 10:11:23: 14000000 INFO @ Wed, 04 Jul 2018 10:11:26: 13000000 INFO @ Wed, 04 Jul 2018 10:11:27: 14000000 INFO @ Wed, 04 Jul 2018 10:11:29: 15000000 INFO @ Wed, 04 Jul 2018 10:11:32: 14000000 INFO @ Wed, 04 Jul 2018 10:11:32: 15000000 INFO @ Wed, 04 Jul 2018 10:11:34: 16000000 INFO @ Wed, 04 Jul 2018 10:11:38: 15000000 INFO @ Wed, 04 Jul 2018 10:11:38: 16000000 INFO @ Wed, 04 Jul 2018 10:11:40: 17000000 INFO @ Wed, 04 Jul 2018 10:11:44: 17000000 INFO @ Wed, 04 Jul 2018 10:11:44: 16000000 INFO @ Wed, 04 Jul 2018 10:11:46: 18000000 INFO @ Wed, 04 Jul 2018 10:11:50: 18000000 INFO @ Wed, 04 Jul 2018 10:11:50: 17000000 INFO @ Wed, 04 Jul 2018 10:11:51: 19000000 INFO @ Wed, 04 Jul 2018 10:11:56: 19000000 INFO @ Wed, 04 Jul 2018 10:11:57: 18000000 INFO @ Wed, 04 Jul 2018 10:11:57: 20000000 INFO @ Wed, 04 Jul 2018 10:12:01: 20000000 INFO @ Wed, 04 Jul 2018 10:12:03: 21000000 INFO @ Wed, 04 Jul 2018 10:12:03: 19000000 INFO @ Wed, 04 Jul 2018 10:12:07: 21000000 INFO @ Wed, 04 Jul 2018 10:12:08: 22000000 INFO @ Wed, 04 Jul 2018 10:12:09: 20000000 INFO @ Wed, 04 Jul 2018 10:12:13: 22000000 INFO @ Wed, 04 Jul 2018 10:12:14: 23000000 INFO @ Wed, 04 Jul 2018 10:12:15: 21000000 INFO @ Wed, 04 Jul 2018 10:12:19: 23000000 INFO @ Wed, 04 Jul 2018 10:12:20: 24000000 INFO @ Wed, 04 Jul 2018 10:12:21: 22000000 INFO @ Wed, 04 Jul 2018 10:12:25: 24000000 INFO @ Wed, 04 Jul 2018 10:12:25: 25000000 INFO @ Wed, 04 Jul 2018 10:12:27: 23000000 INFO @ Wed, 04 Jul 2018 10:12:31: 25000000 INFO @ Wed, 04 Jul 2018 10:12:31: 26000000 INFO @ Wed, 04 Jul 2018 10:12:34: 24000000 INFO @ Wed, 04 Jul 2018 10:12:37: 26000000 INFO @ Wed, 04 Jul 2018 10:12:37: 27000000 INFO @ Wed, 04 Jul 2018 10:12:40: 25000000 INFO @ Wed, 04 Jul 2018 10:12:43: 27000000 INFO @ Wed, 04 Jul 2018 10:12:43: 28000000 INFO @ Wed, 04 Jul 2018 10:12:46: 26000000 INFO @ Wed, 04 Jul 2018 10:12:48: 28000000 INFO @ Wed, 04 Jul 2018 10:12:48: 29000000 INFO @ Wed, 04 Jul 2018 10:12:52: 27000000 INFO @ Wed, 04 Jul 2018 10:12:54: 30000000 INFO @ Wed, 04 Jul 2018 10:12:54: 29000000 INFO @ Wed, 04 Jul 2018 10:12:55: #1 tag size is determined as 75 bps INFO @ Wed, 04 Jul 2018 10:12:55: #1 tag size = 75 INFO @ Wed, 04 Jul 2018 10:12:55: #1 total tags in treatment: 14367794 INFO @ Wed, 04 Jul 2018 10:12:55: #1 user defined the maximum tags... INFO @ Wed, 04 Jul 2018 10:12:55: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 04 Jul 2018 10:12:55: #1 tags after filtering in treatment: 11420149 INFO @ Wed, 04 Jul 2018 10:12:55: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 04 Jul 2018 10:12:55: #1 finished! INFO @ Wed, 04 Jul 2018 10:12:55: #2 Build Peak Model... INFO @ Wed, 04 Jul 2018 10:12:55: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 04 Jul 2018 10:12:56: #2 number of paired peaks: 5 WARNING @ Wed, 04 Jul 2018 10:12:56: Too few paired peaks (5) 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, 04 Jul 2018 10:12:56: Process for pairing-model is terminated! cat: SRX3632921.10_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 `SRX3632921.10_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 `SRX3632921.10_*.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 `SRX3632921.10_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, 04 Jul 2018 10:12:59: 28000000 INFO @ Wed, 04 Jul 2018 10:13:00: 30000000 INFO @ Wed, 04 Jul 2018 10:13:01: #1 tag size is determined as 75 bps INFO @ Wed, 04 Jul 2018 10:13:01: #1 tag size = 75 INFO @ Wed, 04 Jul 2018 10:13:01: #1 total tags in treatment: 14367794 INFO @ Wed, 04 Jul 2018 10:13:01: #1 user defined the maximum tags... INFO @ Wed, 04 Jul 2018 10:13:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 04 Jul 2018 10:13:01: #1 tags after filtering in treatment: 11420149 INFO @ Wed, 04 Jul 2018 10:13:01: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 04 Jul 2018 10:13:01: #1 finished! INFO @ Wed, 04 Jul 2018 10:13:01: #2 Build Peak Model... INFO @ Wed, 04 Jul 2018 10:13:01: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 04 Jul 2018 10:13:02: #2 number of paired peaks: 5 WARNING @ Wed, 04 Jul 2018 10:13:02: Too few paired peaks (5) 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, 04 Jul 2018 10:13:02: Process for pairing-model is terminated! cat: SRX3632921.20_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 `SRX3632921.20_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 `SRX3632921.20_*.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 `SRX3632921.20_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, 04 Jul 2018 10:13:05: 29000000 INFO @ Wed, 04 Jul 2018 10:13:10: 30000000 INFO @ Wed, 04 Jul 2018 10:13:11: #1 tag size is determined as 75 bps INFO @ Wed, 04 Jul 2018 10:13:11: #1 tag size = 75 INFO @ Wed, 04 Jul 2018 10:13:11: #1 total tags in treatment: 14367794 INFO @ Wed, 04 Jul 2018 10:13:11: #1 user defined the maximum tags... INFO @ Wed, 04 Jul 2018 10:13:11: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 04 Jul 2018 10:13:12: #1 tags after filtering in treatment: 11420149 INFO @ Wed, 04 Jul 2018 10:13:12: #1 Redundant rate of treatment: 0.21 INFO @ Wed, 04 Jul 2018 10:13:12: #1 finished! INFO @ Wed, 04 Jul 2018 10:13:12: #2 Build Peak Model... INFO @ Wed, 04 Jul 2018 10:13:12: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 04 Jul 2018 10:13:12: #2 number of paired peaks: 5 WARNING @ Wed, 04 Jul 2018 10:13:12: Too few paired peaks (5) 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, 04 Jul 2018 10:13:12: Process for pairing-model is terminated! cat: SRX3632921.05_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 `SRX3632921.05_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 `SRX3632921.05_*.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 `SRX3632921.05_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。