Job ID = 10714531 sra ファイルのダウンロード中... Completed: 1664410K bytes transferred in 25 seconds (542143K 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 28114095 spots for /home/okishinya/chipatlas/results/dm3/SRX1619255/SRR3211631.sra Written 28114095 spots for /home/okishinya/chipatlas/results/dm3/SRX1619255/SRR3211631.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: 00:56:47 28114095 reads; of these: 28114095 (100.00%) were paired; of these: 4826167 (17.17%) aligned concordantly 0 times 19174878 (68.20%) aligned concordantly exactly 1 time 4113050 (14.63%) aligned concordantly >1 times ---- 4826167 pairs aligned concordantly 0 times; of these: 2613090 (54.14%) aligned discordantly 1 time ---- 2213077 pairs aligned 0 times concordantly or discordantly; of these: 4426154 mates make up the pairs; of these: 1849036 (41.78%) aligned 0 times 1349046 (30.48%) aligned exactly 1 time 1228072 (27.75%) aligned >1 times 96.71% overall alignment rate Time searching: 00:56:47 Overall time: 00:56:47 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 24 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] 2122534 / 25701510 = 0.0826 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 @ Sun, 03 Jun 2018 14:25:42: # Command line: callpeak -t SRX1619255.bam -f BAM -g dm -n SRX1619255.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1619255.05 # format = BAM # ChIP-seq file = ['SRX1619255.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 @ Sun, 03 Jun 2018 14:25:42: # Command line: callpeak -t SRX1619255.bam -f BAM -g dm -n SRX1619255.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1619255.10 # format = BAM # ChIP-seq file = ['SRX1619255.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 @ Sun, 03 Jun 2018 14:25:42: # Command line: callpeak -t SRX1619255.bam -f BAM -g dm -n SRX1619255.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1619255.20 # format = BAM # ChIP-seq file = ['SRX1619255.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 @ Sun, 03 Jun 2018 14:25:42: #1 read tag files... INFO @ Sun, 03 Jun 2018 14:25:42: #1 read tag files... INFO @ Sun, 03 Jun 2018 14:25:42: #1 read tag files... INFO @ Sun, 03 Jun 2018 14:25:42: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 14:25:42: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 14:25:42: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 14:25:49: 1000000 INFO @ Sun, 03 Jun 2018 14:25:49: 1000000 INFO @ Sun, 03 Jun 2018 14:25:49: 1000000 INFO @ Sun, 03 Jun 2018 14:25:56: 2000000 INFO @ Sun, 03 Jun 2018 14:25:56: 2000000 INFO @ Sun, 03 Jun 2018 14:25:56: 2000000 INFO @ Sun, 03 Jun 2018 14:26:03: 3000000 INFO @ Sun, 03 Jun 2018 14:26:03: 3000000 INFO @ Sun, 03 Jun 2018 14:26:03: 3000000 INFO @ Sun, 03 Jun 2018 14:26:10: 4000000 INFO @ Sun, 03 Jun 2018 14:26:10: 4000000 INFO @ Sun, 03 Jun 2018 14:26:10: 4000000 INFO @ Sun, 03 Jun 2018 14:26:17: 5000000 INFO @ Sun, 03 Jun 2018 14:26:17: 5000000 INFO @ Sun, 03 Jun 2018 14:26:17: 5000000 INFO @ Sun, 03 Jun 2018 14:26:24: 6000000 INFO @ Sun, 03 Jun 2018 14:26:24: 6000000 INFO @ Sun, 03 Jun 2018 14:26:24: 6000000 INFO @ Sun, 03 Jun 2018 14:26:31: 7000000 INFO @ Sun, 03 Jun 2018 14:26:31: 7000000 INFO @ Sun, 03 Jun 2018 14:26:31: 7000000 INFO @ Sun, 03 Jun 2018 14:26:38: 8000000 INFO @ Sun, 03 Jun 2018 14:26:38: 8000000 INFO @ Sun, 03 Jun 2018 14:26:38: 8000000 INFO @ Sun, 03 Jun 2018 14:26:45: 9000000 INFO @ Sun, 03 Jun 2018 14:26:45: 9000000 INFO @ Sun, 03 Jun 2018 14:26:45: 9000000 INFO @ Sun, 03 Jun 2018 14:26:52: 10000000 INFO @ Sun, 03 Jun 2018 14:26:52: 10000000 INFO @ Sun, 03 Jun 2018 14:26:52: 10000000 INFO @ Sun, 03 Jun 2018 14:26:59: 11000000 INFO @ Sun, 03 Jun 2018 14:26:59: 11000000 INFO @ Sun, 03 Jun 2018 14:26:59: 11000000 INFO @ Sun, 03 Jun 2018 14:27:06: 12000000 INFO @ Sun, 03 Jun 2018 14:27:06: 12000000 INFO @ Sun, 03 Jun 2018 14:27:06: 12000000 INFO @ Sun, 03 Jun 2018 14:27:13: 13000000 INFO @ Sun, 03 Jun 2018 14:27:13: 13000000 INFO @ Sun, 03 Jun 2018 14:27:13: 13000000 INFO @ Sun, 03 Jun 2018 14:27:20: 14000000 INFO @ Sun, 03 Jun 2018 14:27:20: 14000000 INFO @ Sun, 03 Jun 2018 14:27:20: 14000000 INFO @ Sun, 03 Jun 2018 14:27:27: 15000000 INFO @ Sun, 03 Jun 2018 14:27:27: 15000000 INFO @ Sun, 03 Jun 2018 14:27:27: 15000000 INFO @ Sun, 03 Jun 2018 14:27:34: 16000000 INFO @ Sun, 03 Jun 2018 14:27:34: 16000000 INFO @ Sun, 03 Jun 2018 14:27:34: 16000000 INFO @ Sun, 03 Jun 2018 14:27:41: 17000000 INFO @ Sun, 03 Jun 2018 14:27:41: 17000000 INFO @ Sun, 03 Jun 2018 14:27:41: 17000000 INFO @ Sun, 03 Jun 2018 14:27:48: 18000000 INFO @ Sun, 03 Jun 2018 14:27:48: 18000000 INFO @ Sun, 03 Jun 2018 14:27:48: 18000000 INFO @ Sun, 03 Jun 2018 14:27:55: 19000000 INFO @ Sun, 03 Jun 2018 14:27:55: 19000000 INFO @ Sun, 03 Jun 2018 14:27:55: 19000000 INFO @ Sun, 03 Jun 2018 14:28:03: 20000000 INFO @ Sun, 03 Jun 2018 14:28:03: 20000000 INFO @ Sun, 03 Jun 2018 14:28:03: 20000000 INFO @ Sun, 03 Jun 2018 14:28:10: 21000000 INFO @ Sun, 03 Jun 2018 14:28:10: 21000000 INFO @ Sun, 03 Jun 2018 14:28:10: 21000000 INFO @ Sun, 03 Jun 2018 14:28:17: 22000000 INFO @ Sun, 03 Jun 2018 14:28:17: 22000000 INFO @ Sun, 03 Jun 2018 14:28:17: 22000000 INFO @ Sun, 03 Jun 2018 14:28:24: 23000000 INFO @ Sun, 03 Jun 2018 14:28:24: 23000000 INFO @ Sun, 03 Jun 2018 14:28:24: 23000000 INFO @ Sun, 03 Jun 2018 14:28:31: 24000000 INFO @ Sun, 03 Jun 2018 14:28:31: 24000000 INFO @ Sun, 03 Jun 2018 14:28:31: 24000000 INFO @ Sun, 03 Jun 2018 14:28:38: 25000000 INFO @ Sun, 03 Jun 2018 14:28:38: 25000000 INFO @ Sun, 03 Jun 2018 14:28:38: 25000000 INFO @ Sun, 03 Jun 2018 14:28:46: 26000000 INFO @ Sun, 03 Jun 2018 14:28:46: 26000000 INFO @ Sun, 03 Jun 2018 14:28:46: 26000000 INFO @ Sun, 03 Jun 2018 14:28:53: 27000000 INFO @ Sun, 03 Jun 2018 14:28:53: 27000000 INFO @ Sun, 03 Jun 2018 14:28:53: 27000000 INFO @ Sun, 03 Jun 2018 14:29:00: 28000000 INFO @ Sun, 03 Jun 2018 14:29:00: 28000000 INFO @ Sun, 03 Jun 2018 14:29:00: 28000000 INFO @ Sun, 03 Jun 2018 14:29:08: 29000000 INFO @ Sun, 03 Jun 2018 14:29:08: 29000000 INFO @ Sun, 03 Jun 2018 14:29:08: 29000000 INFO @ Sun, 03 Jun 2018 14:29:14: 30000000 INFO @ Sun, 03 Jun 2018 14:29:14: 30000000 INFO @ Sun, 03 Jun 2018 14:29:14: 30000000 INFO @ Sun, 03 Jun 2018 14:29:21: 31000000 INFO @ Sun, 03 Jun 2018 14:29:21: 31000000 INFO @ Sun, 03 Jun 2018 14:29:22: 31000000 INFO @ Sun, 03 Jun 2018 14:29:29: 32000000 INFO @ Sun, 03 Jun 2018 14:29:29: 32000000 INFO @ Sun, 03 Jun 2018 14:29:30: 32000000 INFO @ Sun, 03 Jun 2018 14:29:36: 33000000 INFO @ Sun, 03 Jun 2018 14:29:36: 33000000 INFO @ Sun, 03 Jun 2018 14:29:37: 33000000 INFO @ Sun, 03 Jun 2018 14:29:44: 34000000 INFO @ Sun, 03 Jun 2018 14:29:44: 34000000 INFO @ Sun, 03 Jun 2018 14:29:45: 34000000 INFO @ Sun, 03 Jun 2018 14:29:51: 35000000 INFO @ Sun, 03 Jun 2018 14:29:51: 35000000 INFO @ Sun, 03 Jun 2018 14:29:52: 35000000 INFO @ Sun, 03 Jun 2018 14:29:58: 36000000 INFO @ Sun, 03 Jun 2018 14:29:58: 36000000 INFO @ Sun, 03 Jun 2018 14:30:00: 36000000 INFO @ Sun, 03 Jun 2018 14:30:05: 37000000 INFO @ Sun, 03 Jun 2018 14:30:05: 37000000 INFO @ Sun, 03 Jun 2018 14:30:06: 37000000 INFO @ Sun, 03 Jun 2018 14:30:11: 38000000 INFO @ Sun, 03 Jun 2018 14:30:11: 38000000 INFO @ Sun, 03 Jun 2018 14:30:12: 38000000 INFO @ Sun, 03 Jun 2018 14:30:18: 39000000 INFO @ Sun, 03 Jun 2018 14:30:18: 39000000 INFO @ Sun, 03 Jun 2018 14:30:19: 39000000 INFO @ Sun, 03 Jun 2018 14:30:24: 40000000 INFO @ Sun, 03 Jun 2018 14:30:24: 40000000 INFO @ Sun, 03 Jun 2018 14:30:25: 40000000 INFO @ Sun, 03 Jun 2018 14:30:31: 41000000 INFO @ Sun, 03 Jun 2018 14:30:31: 41000000 INFO @ Sun, 03 Jun 2018 14:30:32: 41000000 INFO @ Sun, 03 Jun 2018 14:30:39: 42000000 INFO @ Sun, 03 Jun 2018 14:30:39: 42000000 INFO @ Sun, 03 Jun 2018 14:30:39: 42000000 INFO @ Sun, 03 Jun 2018 14:30:46: 43000000 INFO @ Sun, 03 Jun 2018 14:30:46: 43000000 INFO @ Sun, 03 Jun 2018 14:30:47: 43000000 INFO @ Sun, 03 Jun 2018 14:30:53: 44000000 INFO @ Sun, 03 Jun 2018 14:30:53: 44000000 INFO @ Sun, 03 Jun 2018 14:30:54: 44000000 INFO @ Sun, 03 Jun 2018 14:31:00: 45000000 INFO @ Sun, 03 Jun 2018 14:31:00: 45000000 INFO @ Sun, 03 Jun 2018 14:31:02: 45000000 INFO @ Sun, 03 Jun 2018 14:31:07: 46000000 INFO @ Sun, 03 Jun 2018 14:31:07: 46000000 INFO @ Sun, 03 Jun 2018 14:31:09: 46000000 INFO @ Sun, 03 Jun 2018 14:31:14: 47000000 INFO @ Sun, 03 Jun 2018 14:31:14: 47000000 INFO @ Sun, 03 Jun 2018 14:31:15: 47000000 INFO @ Sun, 03 Jun 2018 14:31:20: 48000000 INFO @ Sun, 03 Jun 2018 14:31:20: 48000000 INFO @ Sun, 03 Jun 2018 14:31:21: 48000000 INFO @ Sun, 03 Jun 2018 14:31:27: 49000000 INFO @ Sun, 03 Jun 2018 14:31:27: 49000000 INFO @ Sun, 03 Jun 2018 14:31:28: 49000000 INFO @ Sun, 03 Jun 2018 14:31:33: 50000000 INFO @ Sun, 03 Jun 2018 14:31:33: 50000000 INFO @ Sun, 03 Jun 2018 14:31:34: 50000000 INFO @ Sun, 03 Jun 2018 14:31:34: #1 tag size is determined as 51 bps INFO @ Sun, 03 Jun 2018 14:31:34: #1 tag size is determined as 51 bps INFO @ Sun, 03 Jun 2018 14:31:34: #1 tag size = 51 INFO @ Sun, 03 Jun 2018 14:31:34: #1 tag size = 51 INFO @ Sun, 03 Jun 2018 14:31:34: #1 total tags in treatment: 21223029 INFO @ Sun, 03 Jun 2018 14:31:34: #1 total tags in treatment: 21223029 INFO @ Sun, 03 Jun 2018 14:31:34: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 14:31:34: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 14:31:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Jun 2018 14:31:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Jun 2018 14:31:35: #1 tags after filtering in treatment: 15746748 INFO @ Sun, 03 Jun 2018 14:31:35: #1 Redundant rate of treatment: 0.26 INFO @ Sun, 03 Jun 2018 14:31:35: #1 finished! INFO @ Sun, 03 Jun 2018 14:31:35: #1 tags after filtering in treatment: 15746748 INFO @ Sun, 03 Jun 2018 14:31:35: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 14:31:35: #1 Redundant rate of treatment: 0.26 INFO @ Sun, 03 Jun 2018 14:31:35: #1 finished! INFO @ Sun, 03 Jun 2018 14:31:35: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 14:31:35: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 14:31:35: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 14:31:35: #1 tag size is determined as 51 bps INFO @ Sun, 03 Jun 2018 14:31:35: #1 tag size = 51 INFO @ Sun, 03 Jun 2018 14:31:35: #1 total tags in treatment: 21223029 INFO @ Sun, 03 Jun 2018 14:31:35: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 14:31:35: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sun, 03 Jun 2018 14:31:35: #1 tags after filtering in treatment: 15746748 INFO @ Sun, 03 Jun 2018 14:31:35: #1 Redundant rate of treatment: 0.26 INFO @ Sun, 03 Jun 2018 14:31:35: #1 finished! INFO @ Sun, 03 Jun 2018 14:31:35: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 14:31:35: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 14:31:36: #2 number of paired peaks: 14 WARNING @ Sun, 03 Jun 2018 14:31:36: Too few paired peaks (14) 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 @ Sun, 03 Jun 2018 14:31:36: Process for pairing-model is terminated! INFO @ Sun, 03 Jun 2018 14:31:36: #2 number of paired peaks: 14 WARNING @ Sun, 03 Jun 2018 14:31:36: Too few paired peaks (14) 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 @ Sun, 03 Jun 2018 14:31:36: Process for pairing-model is terminated! cat: SRX1619255.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX1619255.20_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX1619255.20_model.r'rm: cannot remove `SRX1619255.05_model.r': そのようなファイルやディレクトリはありません : 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 `SRX1619255.20_*.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 `SRX1619255.05_*.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 `SRX1619255.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません rm: cannot remove `SRX1619255.05_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 CompletedMACS2peakCalling INFO @ Sun, 03 Jun 2018 14:31:36: #2 number of paired peaks: 14 WARNING @ Sun, 03 Jun 2018 14:31:36: Too few paired peaks (14) 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 @ Sun, 03 Jun 2018 14:31:36: Process for pairing-model is terminated! cat: SRX1619255.10_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 `SRX1619255.10_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 `SRX1619255.10_*.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 `SRX1619255.10_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。