Job ID = 10845210 sra ファイルのダウンロード中... Completed: 791172K bytes transferred in 72 seconds (89288K bits/sec), in 1 file. Completed: 909999K bytes transferred in 61 seconds (121523K 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 14360389 spots for /home/okishinya/chipatlas/results/dm3/SRX3632906/SRR6655547.sra Written 14360389 spots for /home/okishinya/chipatlas/results/dm3/SRX3632906/SRR6655547.sra Read 16599710 spots for /home/okishinya/chipatlas/results/dm3/SRX3632906/SRR6655548.sra Written 16599710 spots for /home/okishinya/chipatlas/results/dm3/SRX3632906/SRR6655548.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 fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:01 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 01:32:50 30960099 reads; of these: 30960099 (100.00%) were paired; of these: 2899856 (9.37%) aligned concordantly 0 times 21670522 (70.00%) aligned concordantly exactly 1 time 6389721 (20.64%) aligned concordantly >1 times ---- 2899856 pairs aligned concordantly 0 times; of these: 1156454 (39.88%) aligned discordantly 1 time ---- 1743402 pairs aligned 0 times concordantly or discordantly; of these: 3486804 mates make up the pairs; of these: 1634593 (46.88%) aligned 0 times 1026429 (29.44%) aligned exactly 1 time 825782 (23.68%) aligned >1 times 97.36% overall alignment rate Time searching: 01:32:51 Overall time: 01:32:51 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 28 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] 1908116 / 28880636 = 0.0661 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 11:22:17: # Command line: callpeak -t SRX3632906.bam -f BAM -g dm -n SRX3632906.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3632906.05 # format = BAM # ChIP-seq file = ['SRX3632906.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 11:22:17: #1 read tag files... INFO @ Wed, 04 Jul 2018 11:22:17: #1 read treatment tags... INFO @ Wed, 04 Jul 2018 11:22:17: # Command line: callpeak -t SRX3632906.bam -f BAM -g dm -n SRX3632906.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3632906.10 # format = BAM # ChIP-seq file = ['SRX3632906.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 11:22:17: #1 read tag files... INFO @ Wed, 04 Jul 2018 11:22:17: #1 read treatment tags... INFO @ Wed, 04 Jul 2018 11:22:17: # Command line: callpeak -t SRX3632906.bam -f BAM -g dm -n SRX3632906.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3632906.20 # format = BAM # ChIP-seq file = ['SRX3632906.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 11:22:17: #1 read tag files... INFO @ Wed, 04 Jul 2018 11:22:17: #1 read treatment tags... INFO @ Wed, 04 Jul 2018 11:22:26: 1000000 INFO @ Wed, 04 Jul 2018 11:22:26: 1000000 INFO @ Wed, 04 Jul 2018 11:22:26: 1000000 INFO @ Wed, 04 Jul 2018 11:22:35: 2000000 INFO @ Wed, 04 Jul 2018 11:22:35: 2000000 INFO @ Wed, 04 Jul 2018 11:22:35: 2000000 INFO @ Wed, 04 Jul 2018 11:22:44: 3000000 INFO @ Wed, 04 Jul 2018 11:22:44: 3000000 INFO @ Wed, 04 Jul 2018 11:22:44: 3000000 INFO @ Wed, 04 Jul 2018 11:22:54: 4000000 INFO @ Wed, 04 Jul 2018 11:22:54: 4000000 INFO @ Wed, 04 Jul 2018 11:22:54: 4000000 INFO @ Wed, 04 Jul 2018 11:23:03: 5000000 INFO @ Wed, 04 Jul 2018 11:23:03: 5000000 INFO @ Wed, 04 Jul 2018 11:23:03: 5000000 INFO @ Wed, 04 Jul 2018 11:23:12: 6000000 INFO @ Wed, 04 Jul 2018 11:23:12: 6000000 INFO @ Wed, 04 Jul 2018 11:23:12: 6000000 INFO @ Wed, 04 Jul 2018 11:23:21: 7000000 INFO @ Wed, 04 Jul 2018 11:23:21: 7000000 INFO @ Wed, 04 Jul 2018 11:23:21: 7000000 INFO @ Wed, 04 Jul 2018 11:23:30: 8000000 INFO @ Wed, 04 Jul 2018 11:23:30: 8000000 INFO @ Wed, 04 Jul 2018 11:23:30: 8000000 INFO @ Wed, 04 Jul 2018 11:23:39: 9000000 INFO @ Wed, 04 Jul 2018 11:23:39: 9000000 INFO @ Wed, 04 Jul 2018 11:23:39: 9000000 INFO @ Wed, 04 Jul 2018 11:23:48: 10000000 INFO @ Wed, 04 Jul 2018 11:23:48: 10000000 INFO @ Wed, 04 Jul 2018 11:23:48: 10000000 INFO @ Wed, 04 Jul 2018 11:23:58: 11000000 INFO @ Wed, 04 Jul 2018 11:23:58: 11000000 INFO @ Wed, 04 Jul 2018 11:23:58: 11000000 INFO @ Wed, 04 Jul 2018 11:24:08: 12000000 INFO @ Wed, 04 Jul 2018 11:24:08: 12000000 INFO @ Wed, 04 Jul 2018 11:24:08: 12000000 INFO @ Wed, 04 Jul 2018 11:24:19: 13000000 INFO @ Wed, 04 Jul 2018 11:24:19: 13000000 INFO @ Wed, 04 Jul 2018 11:24:19: 13000000 INFO @ Wed, 04 Jul 2018 11:24:30: 14000000 INFO @ Wed, 04 Jul 2018 11:24:30: 14000000 INFO @ Wed, 04 Jul 2018 11:24:30: 14000000 INFO @ Wed, 04 Jul 2018 11:24:41: 15000000 INFO @ Wed, 04 Jul 2018 11:24:41: 15000000 INFO @ Wed, 04 Jul 2018 11:24:41: 15000000 INFO @ Wed, 04 Jul 2018 11:24:51: 16000000 INFO @ Wed, 04 Jul 2018 11:24:51: 16000000 INFO @ Wed, 04 Jul 2018 11:24:52: 16000000 INFO @ Wed, 04 Jul 2018 11:25:01: 17000000 INFO @ Wed, 04 Jul 2018 11:25:01: 17000000 INFO @ Wed, 04 Jul 2018 11:25:03: 17000000 INFO @ Wed, 04 Jul 2018 11:25:10: 18000000 INFO @ Wed, 04 Jul 2018 11:25:10: 18000000 INFO @ Wed, 04 Jul 2018 11:25:14: 18000000 INFO @ Wed, 04 Jul 2018 11:25:20: 19000000 INFO @ Wed, 04 Jul 2018 11:25:20: 19000000 INFO @ Wed, 04 Jul 2018 11:25:25: 19000000 INFO @ Wed, 04 Jul 2018 11:25:29: 20000000 INFO @ Wed, 04 Jul 2018 11:25:29: 20000000 INFO @ Wed, 04 Jul 2018 11:25:36: 20000000 INFO @ Wed, 04 Jul 2018 11:25:39: 21000000 INFO @ Wed, 04 Jul 2018 11:25:39: 21000000 INFO @ Wed, 04 Jul 2018 11:25:44: 21000000 INFO @ Wed, 04 Jul 2018 11:25:48: 22000000 INFO @ Wed, 04 Jul 2018 11:25:48: 22000000 INFO @ Wed, 04 Jul 2018 11:25:52: 22000000 INFO @ Wed, 04 Jul 2018 11:25:56: 23000000 INFO @ Wed, 04 Jul 2018 11:25:56: 23000000 INFO @ Wed, 04 Jul 2018 11:25:59: 23000000 INFO @ Wed, 04 Jul 2018 11:26:04: 24000000 INFO @ Wed, 04 Jul 2018 11:26:04: 24000000 INFO @ Wed, 04 Jul 2018 11:26:07: 24000000 INFO @ Wed, 04 Jul 2018 11:26:12: 25000000 INFO @ Wed, 04 Jul 2018 11:26:12: 25000000 INFO @ Wed, 04 Jul 2018 11:26:14: 25000000 INFO @ Wed, 04 Jul 2018 11:26:20: 26000000 INFO @ Wed, 04 Jul 2018 11:26:20: 26000000 INFO @ Wed, 04 Jul 2018 11:26:22: 26000000 INFO @ Wed, 04 Jul 2018 11:26:28: 27000000 INFO @ Wed, 04 Jul 2018 11:26:28: 27000000 INFO @ Wed, 04 Jul 2018 11:26:29: 27000000 INFO @ Wed, 04 Jul 2018 11:26:36: 28000000 INFO @ Wed, 04 Jul 2018 11:26:36: 28000000 INFO @ Wed, 04 Jul 2018 11:26:37: 28000000 INFO @ Wed, 04 Jul 2018 11:26:44: 29000000 INFO @ Wed, 04 Jul 2018 11:26:44: 29000000 INFO @ Wed, 04 Jul 2018 11:26:44: 29000000 INFO @ Wed, 04 Jul 2018 11:26:52: 30000000 INFO @ Wed, 04 Jul 2018 11:26:52: 30000000 INFO @ Wed, 04 Jul 2018 11:26:52: 30000000 INFO @ Wed, 04 Jul 2018 11:26:59: 31000000 INFO @ Wed, 04 Jul 2018 11:27:00: 31000000 INFO @ Wed, 04 Jul 2018 11:27:00: 31000000 INFO @ Wed, 04 Jul 2018 11:27:06: 32000000 INFO @ Wed, 04 Jul 2018 11:27:08: 32000000 INFO @ Wed, 04 Jul 2018 11:27:08: 32000000 INFO @ Wed, 04 Jul 2018 11:27:13: 33000000 INFO @ Wed, 04 Jul 2018 11:27:16: 33000000 INFO @ Wed, 04 Jul 2018 11:27:16: 33000000 INFO @ Wed, 04 Jul 2018 11:27:21: 34000000 INFO @ Wed, 04 Jul 2018 11:27:24: 34000000 INFO @ Wed, 04 Jul 2018 11:27:24: 34000000 INFO @ Wed, 04 Jul 2018 11:27:28: 35000000 INFO @ Wed, 04 Jul 2018 11:27:32: 35000000 INFO @ Wed, 04 Jul 2018 11:27:32: 35000000 INFO @ Wed, 04 Jul 2018 11:27:35: 36000000 INFO @ Wed, 04 Jul 2018 11:27:40: 36000000 INFO @ Wed, 04 Jul 2018 11:27:40: 36000000 INFO @ Wed, 04 Jul 2018 11:27:43: 37000000 INFO @ Wed, 04 Jul 2018 11:27:47: 37000000 INFO @ Wed, 04 Jul 2018 11:27:47: 37000000 INFO @ Wed, 04 Jul 2018 11:27:50: 38000000 INFO @ Wed, 04 Jul 2018 11:27:55: 38000000 INFO @ Wed, 04 Jul 2018 11:27:55: 38000000 INFO @ Wed, 04 Jul 2018 11:27:57: 39000000 INFO @ Wed, 04 Jul 2018 11:28:03: 39000000 INFO @ Wed, 04 Jul 2018 11:28:03: 39000000 INFO @ Wed, 04 Jul 2018 11:28:05: 40000000 INFO @ Wed, 04 Jul 2018 11:28:11: 40000000 INFO @ Wed, 04 Jul 2018 11:28:11: 40000000 INFO @ Wed, 04 Jul 2018 11:28:12: 41000000 INFO @ Wed, 04 Jul 2018 11:28:19: 41000000 INFO @ Wed, 04 Jul 2018 11:28:19: 41000000 INFO @ Wed, 04 Jul 2018 11:28:20: 42000000 INFO @ Wed, 04 Jul 2018 11:28:27: 42000000 INFO @ Wed, 04 Jul 2018 11:28:27: 42000000 INFO @ Wed, 04 Jul 2018 11:28:27: 43000000 INFO @ Wed, 04 Jul 2018 11:28:34: 43000000 INFO @ Wed, 04 Jul 2018 11:28:34: 43000000 INFO @ Wed, 04 Jul 2018 11:28:35: 44000000 INFO @ Wed, 04 Jul 2018 11:28:43: 44000000 INFO @ Wed, 04 Jul 2018 11:28:43: 44000000 INFO @ Wed, 04 Jul 2018 11:28:43: 45000000 INFO @ Wed, 04 Jul 2018 11:28:51: 45000000 INFO @ Wed, 04 Jul 2018 11:28:51: 45000000 INFO @ Wed, 04 Jul 2018 11:28:52: 46000000 INFO @ Wed, 04 Jul 2018 11:28:59: 46000000 INFO @ Wed, 04 Jul 2018 11:28:59: 46000000 INFO @ Wed, 04 Jul 2018 11:29:00: 47000000 INFO @ Wed, 04 Jul 2018 11:29:08: 48000000 INFO @ Wed, 04 Jul 2018 11:29:08: 47000000 INFO @ Wed, 04 Jul 2018 11:29:08: 47000000 INFO @ Wed, 04 Jul 2018 11:29:15: 49000000 INFO @ Wed, 04 Jul 2018 11:29:16: 48000000 INFO @ Wed, 04 Jul 2018 11:29:16: 48000000 INFO @ Wed, 04 Jul 2018 11:29:22: 50000000 INFO @ Wed, 04 Jul 2018 11:29:23: 49000000 INFO @ Wed, 04 Jul 2018 11:29:23: 49000000 INFO @ Wed, 04 Jul 2018 11:29:30: 51000000 INFO @ Wed, 04 Jul 2018 11:29:32: 50000000 INFO @ Wed, 04 Jul 2018 11:29:32: 50000000 INFO @ Wed, 04 Jul 2018 11:29:38: 52000000 INFO @ Wed, 04 Jul 2018 11:29:40: 51000000 INFO @ Wed, 04 Jul 2018 11:29:40: 51000000 INFO @ Wed, 04 Jul 2018 11:29:45: 53000000 INFO @ Wed, 04 Jul 2018 11:29:49: 52000000 INFO @ Wed, 04 Jul 2018 11:29:49: 52000000 INFO @ Wed, 04 Jul 2018 11:29:53: 54000000 INFO @ Wed, 04 Jul 2018 11:29:57: 53000000 INFO @ Wed, 04 Jul 2018 11:29:57: 53000000 INFO @ Wed, 04 Jul 2018 11:30:00: 55000000 INFO @ Wed, 04 Jul 2018 11:30:05: 54000000 INFO @ Wed, 04 Jul 2018 11:30:05: 54000000 INFO @ Wed, 04 Jul 2018 11:30:08: 56000000 INFO @ Wed, 04 Jul 2018 11:30:12: #1 tag size is determined as 75 bps INFO @ Wed, 04 Jul 2018 11:30:12: #1 tag size = 75 INFO @ Wed, 04 Jul 2018 11:30:12: #1 total tags in treatment: 26177299 INFO @ Wed, 04 Jul 2018 11:30:12: #1 user defined the maximum tags... INFO @ Wed, 04 Jul 2018 11:30:12: #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 11:30:12: #1 tags after filtering in treatment: 21387529 INFO @ Wed, 04 Jul 2018 11:30:12: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 04 Jul 2018 11:30:12: #1 finished! INFO @ Wed, 04 Jul 2018 11:30:12: #2 Build Peak Model... INFO @ Wed, 04 Jul 2018 11:30:12: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 04 Jul 2018 11:30:14: #2 number of paired peaks: 13 WARNING @ Wed, 04 Jul 2018 11:30:14: Too few paired peaks (13) 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 11:30:14: Process for pairing-model is terminated! cat: SRX3632906.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません INFO @ Wed, 04 Jul 2018 11:30:14: 55000000 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3632906.20_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 `SRX3632906.20_*.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 `SRX3632906.20_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 11:30:14: 55000000 INFO @ Wed, 04 Jul 2018 11:30:21: 56000000 INFO @ Wed, 04 Jul 2018 11:30:21: 56000000 INFO @ Wed, 04 Jul 2018 11:30:25: #1 tag size is determined as 75 bps INFO @ Wed, 04 Jul 2018 11:30:25: #1 tag size = 75 INFO @ Wed, 04 Jul 2018 11:30:25: #1 total tags in treatment: 26177299 INFO @ Wed, 04 Jul 2018 11:30:25: #1 user defined the maximum tags... INFO @ Wed, 04 Jul 2018 11:30:25: #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 11:30:25: #1 tag size is determined as 75 bps INFO @ Wed, 04 Jul 2018 11:30:25: #1 tag size = 75 INFO @ Wed, 04 Jul 2018 11:30:25: #1 total tags in treatment: 26177299 INFO @ Wed, 04 Jul 2018 11:30:25: #1 user defined the maximum tags... INFO @ Wed, 04 Jul 2018 11:30:25: #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 11:30:25: #1 tags after filtering in treatment: 21387529 INFO @ Wed, 04 Jul 2018 11:30:25: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 04 Jul 2018 11:30:25: #1 finished! INFO @ Wed, 04 Jul 2018 11:30:25: #2 Build Peak Model... INFO @ Wed, 04 Jul 2018 11:30:25: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 04 Jul 2018 11:30:25: #1 tags after filtering in treatment: 21387529 INFO @ Wed, 04 Jul 2018 11:30:25: #1 Redundant rate of treatment: 0.18 INFO @ Wed, 04 Jul 2018 11:30:25: #1 finished! INFO @ Wed, 04 Jul 2018 11:30:25: #2 Build Peak Model... INFO @ Wed, 04 Jul 2018 11:30:25: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 04 Jul 2018 11:30:27: #2 number of paired peaks: 13 WARNING @ Wed, 04 Jul 2018 11:30:27: Too few paired peaks (13) 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 11:30:27: Process for pairing-model is terminated! cat: SRX3632906.10_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 `SRX3632906.10_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 `SRX3632906.10_*.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 `SRX3632906.10_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 11:30:27: #2 number of paired peaks: 13 WARNING @ Wed, 04 Jul 2018 11:30:27: Too few paired peaks (13) 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 11:30:27: Process for pairing-model is terminated! cat: SRX3632906.05_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 `SRX3632906.05_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 `SRX3632906.05_*.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 `SRX3632906.05_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。