Job ID = 10845213 sra ファイルのダウンロード中... Completed: 609233K bytes transferred in 62 seconds (80259K bits/sec), in 1 file. Completed: 653881K bytes transferred in 47 seconds (112979K 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 11123082 spots for /home/okishinya/chipatlas/results/dm3/SRX3632909/SRR6655553.sra Written 11123082 spots for /home/okishinya/chipatlas/results/dm3/SRX3632909/SRR6655553.sra Read 11857844 spots for /home/okishinya/chipatlas/results/dm3/SRX3632909/SRR6655554.sra Written 11857844 spots for /home/okishinya/chipatlas/results/dm3/SRX3632909/SRR6655554.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: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:49:56 22980926 reads; of these: 22980926 (100.00%) were paired; of these: 2035018 (8.86%) aligned concordantly 0 times 17823775 (77.56%) aligned concordantly exactly 1 time 3122133 (13.59%) aligned concordantly >1 times ---- 2035018 pairs aligned concordantly 0 times; of these: 789279 (38.78%) aligned discordantly 1 time ---- 1245739 pairs aligned 0 times concordantly or discordantly; of these: 2491478 mates make up the pairs; of these: 1584289 (63.59%) aligned 0 times 587060 (23.56%) aligned exactly 1 time 320129 (12.85%) aligned >1 times 96.55% overall alignment rate Time searching: 00:49:56 Overall time: 00:49:56 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 20 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] 1449558 / 21678824 = 0.0669 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 10:33:16: # Command line: callpeak -t SRX3632909.bam -f BAM -g dm -n SRX3632909.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3632909.05 # format = BAM # ChIP-seq file = ['SRX3632909.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 10:33:16: # Command line: callpeak -t SRX3632909.bam -f BAM -g dm -n SRX3632909.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3632909.20 # format = BAM # ChIP-seq file = ['SRX3632909.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 10:33:16: #1 read tag files... INFO @ Wed, 04 Jul 2018 10:33:16: #1 read tag files... INFO @ Wed, 04 Jul 2018 10:33:16: #1 read treatment tags... INFO @ Wed, 04 Jul 2018 10:33:16: #1 read treatment tags... INFO @ Wed, 04 Jul 2018 10:33:16: # Command line: callpeak -t SRX3632909.bam -f BAM -g dm -n SRX3632909.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3632909.10 # format = BAM # ChIP-seq file = ['SRX3632909.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 10:33:16: #1 read tag files... INFO @ Wed, 04 Jul 2018 10:33:16: #1 read treatment tags... INFO @ Wed, 04 Jul 2018 10:33:24: 1000000 INFO @ Wed, 04 Jul 2018 10:33:24: 1000000 INFO @ Wed, 04 Jul 2018 10:33:24: 1000000 INFO @ Wed, 04 Jul 2018 10:33:32: 2000000 INFO @ Wed, 04 Jul 2018 10:33:33: 2000000 INFO @ Wed, 04 Jul 2018 10:33:33: 2000000 INFO @ Wed, 04 Jul 2018 10:33:40: 3000000 INFO @ Wed, 04 Jul 2018 10:33:41: 3000000 INFO @ Wed, 04 Jul 2018 10:33:41: 3000000 INFO @ Wed, 04 Jul 2018 10:33:48: 4000000 INFO @ Wed, 04 Jul 2018 10:33:49: 4000000 INFO @ Wed, 04 Jul 2018 10:33:49: 4000000 INFO @ Wed, 04 Jul 2018 10:33:56: 5000000 INFO @ Wed, 04 Jul 2018 10:33:58: 5000000 INFO @ Wed, 04 Jul 2018 10:33:58: 5000000 INFO @ Wed, 04 Jul 2018 10:34:04: 6000000 INFO @ Wed, 04 Jul 2018 10:34:06: 6000000 INFO @ Wed, 04 Jul 2018 10:34:06: 6000000 INFO @ Wed, 04 Jul 2018 10:34:12: 7000000 INFO @ Wed, 04 Jul 2018 10:34:14: 7000000 INFO @ Wed, 04 Jul 2018 10:34:14: 7000000 INFO @ Wed, 04 Jul 2018 10:34:20: 8000000 INFO @ Wed, 04 Jul 2018 10:34:23: 8000000 INFO @ Wed, 04 Jul 2018 10:34:23: 8000000 INFO @ Wed, 04 Jul 2018 10:34:28: 9000000 INFO @ Wed, 04 Jul 2018 10:34:31: 9000000 INFO @ Wed, 04 Jul 2018 10:34:31: 9000000 INFO @ Wed, 04 Jul 2018 10:34:36: 10000000 INFO @ Wed, 04 Jul 2018 10:34:40: 10000000 INFO @ Wed, 04 Jul 2018 10:34:40: 10000000 INFO @ Wed, 04 Jul 2018 10:34:44: 11000000 INFO @ Wed, 04 Jul 2018 10:34:48: 11000000 INFO @ Wed, 04 Jul 2018 10:34:48: 11000000 INFO @ Wed, 04 Jul 2018 10:34:52: 12000000 INFO @ Wed, 04 Jul 2018 10:34:56: 12000000 INFO @ Wed, 04 Jul 2018 10:34:56: 12000000 INFO @ Wed, 04 Jul 2018 10:35:00: 13000000 INFO @ Wed, 04 Jul 2018 10:35:05: 13000000 INFO @ Wed, 04 Jul 2018 10:35:05: 13000000 INFO @ Wed, 04 Jul 2018 10:35:08: 14000000 INFO @ Wed, 04 Jul 2018 10:35:13: 14000000 INFO @ Wed, 04 Jul 2018 10:35:13: 14000000 INFO @ Wed, 04 Jul 2018 10:35:16: 15000000 INFO @ Wed, 04 Jul 2018 10:35:21: 15000000 INFO @ Wed, 04 Jul 2018 10:35:21: 15000000 INFO @ Wed, 04 Jul 2018 10:35:23: 16000000 INFO @ Wed, 04 Jul 2018 10:35:30: 16000000 INFO @ Wed, 04 Jul 2018 10:35:30: 16000000 INFO @ Wed, 04 Jul 2018 10:35:31: 17000000 INFO @ Wed, 04 Jul 2018 10:35:38: 17000000 INFO @ Wed, 04 Jul 2018 10:35:38: 17000000 INFO @ Wed, 04 Jul 2018 10:35:39: 18000000 INFO @ Wed, 04 Jul 2018 10:35:46: 18000000 INFO @ Wed, 04 Jul 2018 10:35:46: 18000000 INFO @ Wed, 04 Jul 2018 10:35:47: 19000000 INFO @ Wed, 04 Jul 2018 10:35:55: 19000000 INFO @ Wed, 04 Jul 2018 10:35:55: 19000000 INFO @ Wed, 04 Jul 2018 10:35:55: 20000000 INFO @ Wed, 04 Jul 2018 10:36:03: 21000000 INFO @ Wed, 04 Jul 2018 10:36:03: 20000000 INFO @ Wed, 04 Jul 2018 10:36:03: 20000000 INFO @ Wed, 04 Jul 2018 10:36:10: 22000000 INFO @ Wed, 04 Jul 2018 10:36:11: 21000000 INFO @ Wed, 04 Jul 2018 10:36:11: 21000000 INFO @ Wed, 04 Jul 2018 10:36:18: 23000000 INFO @ Wed, 04 Jul 2018 10:36:20: 22000000 INFO @ Wed, 04 Jul 2018 10:36:20: 22000000 INFO @ Wed, 04 Jul 2018 10:36:26: 24000000 INFO @ Wed, 04 Jul 2018 10:36:28: 23000000 INFO @ Wed, 04 Jul 2018 10:36:28: 23000000 INFO @ Wed, 04 Jul 2018 10:36:34: 25000000 INFO @ Wed, 04 Jul 2018 10:36:36: 24000000 INFO @ Wed, 04 Jul 2018 10:36:36: 24000000 INFO @ Wed, 04 Jul 2018 10:36:42: 26000000 INFO @ Wed, 04 Jul 2018 10:36:44: 25000000 INFO @ Wed, 04 Jul 2018 10:36:44: 25000000 INFO @ Wed, 04 Jul 2018 10:36:50: 27000000 INFO @ Wed, 04 Jul 2018 10:36:53: 26000000 INFO @ Wed, 04 Jul 2018 10:36:53: 26000000 INFO @ Wed, 04 Jul 2018 10:36:57: 28000000 INFO @ Wed, 04 Jul 2018 10:37:01: 27000000 INFO @ Wed, 04 Jul 2018 10:37:01: 27000000 INFO @ Wed, 04 Jul 2018 10:37:05: 29000000 INFO @ Wed, 04 Jul 2018 10:37:10: 28000000 INFO @ Wed, 04 Jul 2018 10:37:10: 28000000 INFO @ Wed, 04 Jul 2018 10:37:13: 30000000 INFO @ Wed, 04 Jul 2018 10:37:18: 29000000 INFO @ Wed, 04 Jul 2018 10:37:18: 29000000 INFO @ Wed, 04 Jul 2018 10:37:21: 31000000 INFO @ Wed, 04 Jul 2018 10:37:26: 30000000 INFO @ Wed, 04 Jul 2018 10:37:26: 30000000 INFO @ Wed, 04 Jul 2018 10:37:28: 32000000 INFO @ Wed, 04 Jul 2018 10:37:35: 31000000 INFO @ Wed, 04 Jul 2018 10:37:35: 31000000 INFO @ Wed, 04 Jul 2018 10:37:36: 33000000 INFO @ Wed, 04 Jul 2018 10:37:43: 32000000 INFO @ Wed, 04 Jul 2018 10:37:43: 32000000 INFO @ Wed, 04 Jul 2018 10:37:44: 34000000 INFO @ Wed, 04 Jul 2018 10:37:51: 33000000 INFO @ Wed, 04 Jul 2018 10:37:51: 33000000 INFO @ Wed, 04 Jul 2018 10:37:51: 35000000 INFO @ Wed, 04 Jul 2018 10:37:59: 36000000 INFO @ Wed, 04 Jul 2018 10:37:59: 34000000 INFO @ Wed, 04 Jul 2018 10:37:59: 34000000 INFO @ Wed, 04 Jul 2018 10:38:07: 37000000 INFO @ Wed, 04 Jul 2018 10:38:07: 35000000 INFO @ Wed, 04 Jul 2018 10:38:07: 35000000 INFO @ Wed, 04 Jul 2018 10:38:14: 38000000 INFO @ Wed, 04 Jul 2018 10:38:16: 36000000 INFO @ Wed, 04 Jul 2018 10:38:16: 36000000 INFO @ Wed, 04 Jul 2018 10:38:22: 39000000 INFO @ Wed, 04 Jul 2018 10:38:24: 37000000 INFO @ Wed, 04 Jul 2018 10:38:24: 37000000 INFO @ Wed, 04 Jul 2018 10:38:30: 40000000 INFO @ Wed, 04 Jul 2018 10:38:32: 38000000 INFO @ Wed, 04 Jul 2018 10:38:32: 38000000 INFO @ Wed, 04 Jul 2018 10:38:37: 41000000 INFO @ Wed, 04 Jul 2018 10:38:40: 39000000 INFO @ Wed, 04 Jul 2018 10:38:40: 39000000 INFO @ Wed, 04 Jul 2018 10:38:41: #1 tag size is determined as 75 bps INFO @ Wed, 04 Jul 2018 10:38:41: #1 tag size = 75 INFO @ Wed, 04 Jul 2018 10:38:41: #1 total tags in treatment: 19520578 INFO @ Wed, 04 Jul 2018 10:38:41: #1 user defined the maximum tags... INFO @ Wed, 04 Jul 2018 10:38:41: #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 10:38:41: #1 tags after filtering in treatment: 15882062 INFO @ Wed, 04 Jul 2018 10:38:41: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 04 Jul 2018 10:38:41: #1 finished! INFO @ Wed, 04 Jul 2018 10:38:41: #2 Build Peak Model... INFO @ Wed, 04 Jul 2018 10:38:41: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 04 Jul 2018 10:38:42: #2 number of paired peaks: 14 WARNING @ Wed, 04 Jul 2018 10:38:42: 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 @ Wed, 04 Jul 2018 10:38:42: Process for pairing-model is terminated! cat: SRX3632909.20_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 `SRX3632909.20_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 `SRX3632909.20_*.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 `SRX3632909.20_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 10:38:48: 40000000 INFO @ Wed, 04 Jul 2018 10:38:48: 40000000 INFO @ Wed, 04 Jul 2018 10:38:57: 41000000 INFO @ Wed, 04 Jul 2018 10:38:57: 41000000 INFO @ Wed, 04 Jul 2018 10:39:00: #1 tag size is determined as 75 bps INFO @ Wed, 04 Jul 2018 10:39:00: #1 tag size = 75 INFO @ Wed, 04 Jul 2018 10:39:00: #1 total tags in treatment: 19520578 INFO @ Wed, 04 Jul 2018 10:39:00: #1 user defined the maximum tags... INFO @ Wed, 04 Jul 2018 10:39:00: #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 10:39:00: #1 tag size is determined as 75 bps INFO @ Wed, 04 Jul 2018 10:39:00: #1 tag size = 75 INFO @ Wed, 04 Jul 2018 10:39:00: #1 total tags in treatment: 19520578 INFO @ Wed, 04 Jul 2018 10:39:00: #1 user defined the maximum tags... INFO @ Wed, 04 Jul 2018 10:39:00: #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 10:39:01: #1 tags after filtering in treatment: 15882062 INFO @ Wed, 04 Jul 2018 10:39:01: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 04 Jul 2018 10:39:01: #1 finished! INFO @ Wed, 04 Jul 2018 10:39:01: #2 Build Peak Model... INFO @ Wed, 04 Jul 2018 10:39:01: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 04 Jul 2018 10:39:01: #1 tags after filtering in treatment: 15882062 INFO @ Wed, 04 Jul 2018 10:39:01: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 04 Jul 2018 10:39:01: #1 finished! INFO @ Wed, 04 Jul 2018 10:39:01: #2 Build Peak Model... INFO @ Wed, 04 Jul 2018 10:39:01: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 04 Jul 2018 10:39:02: #2 number of paired peaks: 14 WARNING @ Wed, 04 Jul 2018 10:39:02: 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 @ Wed, 04 Jul 2018 10:39:02: Process for pairing-model is terminated! INFO @ Wed, 04 Jul 2018 10:39:02: #2 number of paired peaks: 14 WARNING @ Wed, 04 Jul 2018 10:39:02: 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 @ Wed, 04 Jul 2018 10:39:02: Process for pairing-model is terminated! cat: SRX3632909.05_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: SRX3632909.10_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 `SRX3632909.05_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 `SRX3632909.05_*.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 `SRX3632909.05_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 pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3632909.10_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 `SRX3632909.10_*.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 `SRX3632909.10_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。