Job ID = 10714430 sra ファイルのダウンロード中... Completed: 2630423K bytes transferred in 56 seconds (381925K 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 38342925 spots for /home/okishinya/chipatlas/results/ce10/SRX4085346/SRR7167375.sra Written 38342925 spots for /home/okishinya/chipatlas/results/ce10/SRX4085346/SRR7167375.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: 00:41:04 38342925 reads; of these: 38342925 (100.00%) were paired; of these: 2498374 (6.52%) aligned concordantly 0 times 30754353 (80.21%) aligned concordantly exactly 1 time 5090198 (13.28%) aligned concordantly >1 times ---- 2498374 pairs aligned concordantly 0 times; of these: 546525 (21.88%) aligned discordantly 1 time ---- 1951849 pairs aligned 0 times concordantly or discordantly; of these: 3903698 mates make up the pairs; of these: 2044049 (52.36%) aligned 0 times 1353747 (34.68%) aligned exactly 1 time 505902 (12.96%) aligned >1 times 97.33% overall alignment rate Time searching: 00:41:04 Overall time: 00:41:04 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 32 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 chrV... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] 7212485 / 36135711 = 0.1996 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 13:35:34: # Command line: callpeak -t SRX4085346.bam -f BAM -g ce -n SRX4085346.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4085346.20 # format = BAM # ChIP-seq file = ['SRX4085346.bam'] # control file = None # effective genome size = 9.00e+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 @ Sun, 03 Jun 2018 13:35:34: # Command line: callpeak -t SRX4085346.bam -f BAM -g ce -n SRX4085346.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4085346.05 # format = BAM # ChIP-seq file = ['SRX4085346.bam'] # control file = None # effective genome size = 9.00e+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 @ Sun, 03 Jun 2018 13:35:34: # Command line: callpeak -t SRX4085346.bam -f BAM -g ce -n SRX4085346.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4085346.10 # format = BAM # ChIP-seq file = ['SRX4085346.bam'] # control file = None # effective genome size = 9.00e+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 @ Sun, 03 Jun 2018 13:35:34: #1 read tag files... INFO @ Sun, 03 Jun 2018 13:35:34: #1 read tag files... INFO @ Sun, 03 Jun 2018 13:35:34: #1 read tag files... INFO @ Sun, 03 Jun 2018 13:35:34: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 13:35:34: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 13:35:34: #1 read treatment tags... INFO @ Sun, 03 Jun 2018 13:35:40: 1000000 INFO @ Sun, 03 Jun 2018 13:35:40: 1000000 INFO @ Sun, 03 Jun 2018 13:35:40: 1000000 INFO @ Sun, 03 Jun 2018 13:35:46: 2000000 INFO @ Sun, 03 Jun 2018 13:35:46: 2000000 INFO @ Sun, 03 Jun 2018 13:35:46: 2000000 INFO @ Sun, 03 Jun 2018 13:35:51: 3000000 INFO @ Sun, 03 Jun 2018 13:35:51: 3000000 INFO @ Sun, 03 Jun 2018 13:35:52: 3000000 INFO @ Sun, 03 Jun 2018 13:35:57: 4000000 INFO @ Sun, 03 Jun 2018 13:35:57: 4000000 INFO @ Sun, 03 Jun 2018 13:35:58: 4000000 INFO @ Sun, 03 Jun 2018 13:36:03: 5000000 INFO @ Sun, 03 Jun 2018 13:36:03: 5000000 INFO @ Sun, 03 Jun 2018 13:36:03: 5000000 INFO @ Sun, 03 Jun 2018 13:36:08: 6000000 INFO @ Sun, 03 Jun 2018 13:36:08: 6000000 INFO @ Sun, 03 Jun 2018 13:36:09: 6000000 INFO @ Sun, 03 Jun 2018 13:36:14: 7000000 INFO @ Sun, 03 Jun 2018 13:36:14: 7000000 INFO @ Sun, 03 Jun 2018 13:36:15: 7000000 INFO @ Sun, 03 Jun 2018 13:36:20: 8000000 INFO @ Sun, 03 Jun 2018 13:36:20: 8000000 INFO @ Sun, 03 Jun 2018 13:36:21: 8000000 INFO @ Sun, 03 Jun 2018 13:36:25: 9000000 INFO @ Sun, 03 Jun 2018 13:36:26: 9000000 INFO @ Sun, 03 Jun 2018 13:36:27: 9000000 INFO @ Sun, 03 Jun 2018 13:36:31: 10000000 INFO @ Sun, 03 Jun 2018 13:36:32: 10000000 INFO @ Sun, 03 Jun 2018 13:36:33: 10000000 INFO @ Sun, 03 Jun 2018 13:36:37: 11000000 INFO @ Sun, 03 Jun 2018 13:36:37: 11000000 INFO @ Sun, 03 Jun 2018 13:36:39: 11000000 INFO @ Sun, 03 Jun 2018 13:36:42: 12000000 INFO @ Sun, 03 Jun 2018 13:36:43: 12000000 INFO @ Sun, 03 Jun 2018 13:36:45: 12000000 INFO @ Sun, 03 Jun 2018 13:36:48: 13000000 INFO @ Sun, 03 Jun 2018 13:36:49: 13000000 INFO @ Sun, 03 Jun 2018 13:36:51: 13000000 INFO @ Sun, 03 Jun 2018 13:36:53: 14000000 INFO @ Sun, 03 Jun 2018 13:36:55: 14000000 INFO @ Sun, 03 Jun 2018 13:36:57: 14000000 INFO @ Sun, 03 Jun 2018 13:36:59: 15000000 INFO @ Sun, 03 Jun 2018 13:37:01: 15000000 INFO @ Sun, 03 Jun 2018 13:37:04: 15000000 INFO @ Sun, 03 Jun 2018 13:37:05: 16000000 INFO @ Sun, 03 Jun 2018 13:37:07: 16000000 INFO @ Sun, 03 Jun 2018 13:37:10: 16000000 INFO @ Sun, 03 Jun 2018 13:37:10: 17000000 INFO @ Sun, 03 Jun 2018 13:37:13: 17000000 INFO @ Sun, 03 Jun 2018 13:37:16: 17000000 INFO @ Sun, 03 Jun 2018 13:37:16: 18000000 INFO @ Sun, 03 Jun 2018 13:37:18: 18000000 INFO @ Sun, 03 Jun 2018 13:37:21: 19000000 INFO @ Sun, 03 Jun 2018 13:37:22: 18000000 INFO @ Sun, 03 Jun 2018 13:37:24: 19000000 INFO @ Sun, 03 Jun 2018 13:37:27: 20000000 INFO @ Sun, 03 Jun 2018 13:37:28: 19000000 INFO @ Sun, 03 Jun 2018 13:37:30: 20000000 INFO @ Sun, 03 Jun 2018 13:37:33: 21000000 INFO @ Sun, 03 Jun 2018 13:37:34: 20000000 INFO @ Sun, 03 Jun 2018 13:37:36: 21000000 INFO @ Sun, 03 Jun 2018 13:37:38: 22000000 INFO @ Sun, 03 Jun 2018 13:37:41: 21000000 INFO @ Sun, 03 Jun 2018 13:37:42: 22000000 INFO @ Sun, 03 Jun 2018 13:37:44: 23000000 INFO @ Sun, 03 Jun 2018 13:37:47: 22000000 INFO @ Sun, 03 Jun 2018 13:37:48: 23000000 INFO @ Sun, 03 Jun 2018 13:37:49: 24000000 INFO @ Sun, 03 Jun 2018 13:37:53: 23000000 INFO @ Sun, 03 Jun 2018 13:37:54: 24000000 INFO @ Sun, 03 Jun 2018 13:37:55: 25000000 INFO @ Sun, 03 Jun 2018 13:37:59: 24000000 INFO @ Sun, 03 Jun 2018 13:38:00: 25000000 INFO @ Sun, 03 Jun 2018 13:38:00: 26000000 INFO @ Sun, 03 Jun 2018 13:38:05: 25000000 INFO @ Sun, 03 Jun 2018 13:38:06: 26000000 INFO @ Sun, 03 Jun 2018 13:38:06: 27000000 INFO @ Sun, 03 Jun 2018 13:38:11: 26000000 INFO @ Sun, 03 Jun 2018 13:38:12: 28000000 INFO @ Sun, 03 Jun 2018 13:38:12: 27000000 INFO @ Sun, 03 Jun 2018 13:38:17: 27000000 INFO @ Sun, 03 Jun 2018 13:38:18: 29000000 INFO @ Sun, 03 Jun 2018 13:38:18: 28000000 INFO @ Sun, 03 Jun 2018 13:38:23: 28000000 INFO @ Sun, 03 Jun 2018 13:38:23: 30000000 INFO @ Sun, 03 Jun 2018 13:38:24: 29000000 INFO @ Sun, 03 Jun 2018 13:38:29: 29000000 INFO @ Sun, 03 Jun 2018 13:38:29: 31000000 INFO @ Sun, 03 Jun 2018 13:38:30: 30000000 INFO @ Sun, 03 Jun 2018 13:38:34: 30000000 INFO @ Sun, 03 Jun 2018 13:38:35: 32000000 INFO @ Sun, 03 Jun 2018 13:38:36: 31000000 INFO @ Sun, 03 Jun 2018 13:38:40: 31000000 INFO @ Sun, 03 Jun 2018 13:38:41: 33000000 INFO @ Sun, 03 Jun 2018 13:38:42: 32000000 INFO @ Sun, 03 Jun 2018 13:38:46: 32000000 INFO @ Sun, 03 Jun 2018 13:38:47: 34000000 INFO @ Sun, 03 Jun 2018 13:38:48: 33000000 INFO @ Sun, 03 Jun 2018 13:38:52: 33000000 INFO @ Sun, 03 Jun 2018 13:38:53: 35000000 INFO @ Sun, 03 Jun 2018 13:38:53: 34000000 INFO @ Sun, 03 Jun 2018 13:38:58: 34000000 INFO @ Sun, 03 Jun 2018 13:38:58: 36000000 INFO @ Sun, 03 Jun 2018 13:38:59: 35000000 INFO @ Sun, 03 Jun 2018 13:39:04: 37000000 INFO @ Sun, 03 Jun 2018 13:39:04: 35000000 INFO @ Sun, 03 Jun 2018 13:39:05: 36000000 INFO @ Sun, 03 Jun 2018 13:39:09: 38000000 INFO @ Sun, 03 Jun 2018 13:39:10: 36000000 INFO @ Sun, 03 Jun 2018 13:39:11: 37000000 INFO @ Sun, 03 Jun 2018 13:39:15: 39000000 INFO @ Sun, 03 Jun 2018 13:39:16: 37000000 INFO @ Sun, 03 Jun 2018 13:39:17: 38000000 INFO @ Sun, 03 Jun 2018 13:39:21: 40000000 INFO @ Sun, 03 Jun 2018 13:39:22: 39000000 INFO @ Sun, 03 Jun 2018 13:39:22: 38000000 INFO @ Sun, 03 Jun 2018 13:39:27: 41000000 INFO @ Sun, 03 Jun 2018 13:39:28: 40000000 INFO @ Sun, 03 Jun 2018 13:39:28: 39000000 INFO @ Sun, 03 Jun 2018 13:39:33: 42000000 INFO @ Sun, 03 Jun 2018 13:39:33: 41000000 INFO @ Sun, 03 Jun 2018 13:39:34: 40000000 INFO @ Sun, 03 Jun 2018 13:39:39: 43000000 INFO @ Sun, 03 Jun 2018 13:39:39: 42000000 INFO @ Sun, 03 Jun 2018 13:39:41: 41000000 INFO @ Sun, 03 Jun 2018 13:39:44: 44000000 INFO @ Sun, 03 Jun 2018 13:39:45: 43000000 INFO @ Sun, 03 Jun 2018 13:39:47: 42000000 INFO @ Sun, 03 Jun 2018 13:39:50: 44000000 INFO @ Sun, 03 Jun 2018 13:39:50: 45000000 INFO @ Sun, 03 Jun 2018 13:39:53: 43000000 INFO @ Sun, 03 Jun 2018 13:39:56: 45000000 INFO @ Sun, 03 Jun 2018 13:39:56: 46000000 INFO @ Sun, 03 Jun 2018 13:39:59: 44000000 INFO @ Sun, 03 Jun 2018 13:40:01: 46000000 INFO @ Sun, 03 Jun 2018 13:40:02: 47000000 INFO @ Sun, 03 Jun 2018 13:40:05: 45000000 INFO @ Sun, 03 Jun 2018 13:40:07: 47000000 INFO @ Sun, 03 Jun 2018 13:40:08: 48000000 INFO @ Sun, 03 Jun 2018 13:40:11: 46000000 INFO @ Sun, 03 Jun 2018 13:40:13: 48000000 INFO @ Sun, 03 Jun 2018 13:40:13: 49000000 INFO @ Sun, 03 Jun 2018 13:40:17: 47000000 INFO @ Sun, 03 Jun 2018 13:40:18: 49000000 INFO @ Sun, 03 Jun 2018 13:40:19: 50000000 INFO @ Sun, 03 Jun 2018 13:40:24: 48000000 INFO @ Sun, 03 Jun 2018 13:40:24: 50000000 INFO @ Sun, 03 Jun 2018 13:40:25: 51000000 INFO @ Sun, 03 Jun 2018 13:40:30: 51000000 INFO @ Sun, 03 Jun 2018 13:40:30: 49000000 INFO @ Sun, 03 Jun 2018 13:40:31: 52000000 INFO @ Sun, 03 Jun 2018 13:40:35: 52000000 INFO @ Sun, 03 Jun 2018 13:40:36: 50000000 INFO @ Sun, 03 Jun 2018 13:40:37: 53000000 INFO @ Sun, 03 Jun 2018 13:40:41: 53000000 INFO @ Sun, 03 Jun 2018 13:40:42: 51000000 INFO @ Sun, 03 Jun 2018 13:40:42: 54000000 INFO @ Sun, 03 Jun 2018 13:40:46: 54000000 INFO @ Sun, 03 Jun 2018 13:40:48: 55000000 INFO @ Sun, 03 Jun 2018 13:40:48: 52000000 INFO @ Sun, 03 Jun 2018 13:40:52: 55000000 INFO @ Sun, 03 Jun 2018 13:40:54: 56000000 INFO @ Sun, 03 Jun 2018 13:40:54: 53000000 INFO @ Sun, 03 Jun 2018 13:40:57: 56000000 INFO @ Sun, 03 Jun 2018 13:40:59: 57000000 INFO @ Sun, 03 Jun 2018 13:41:00: 54000000 INFO @ Sun, 03 Jun 2018 13:41:03: 57000000 INFO @ Sun, 03 Jun 2018 13:41:05: 58000000 INFO @ Sun, 03 Jun 2018 13:41:06: 55000000 INFO @ Sun, 03 Jun 2018 13:41:09: 58000000 INFO @ Sun, 03 Jun 2018 13:41:11: 59000000 INFO @ Sun, 03 Jun 2018 13:41:13: 56000000 INFO @ Sun, 03 Jun 2018 13:41:14: 59000000 INFO @ Sun, 03 Jun 2018 13:41:17: 60000000 INFO @ Sun, 03 Jun 2018 13:41:18: #1 tag size is determined as 51 bps INFO @ Sun, 03 Jun 2018 13:41:18: #1 tag size = 51 INFO @ Sun, 03 Jun 2018 13:41:18: #1 total tags in treatment: 28669624 INFO @ Sun, 03 Jun 2018 13:41:18: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 13:41:18: #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 13:41:19: 57000000 INFO @ Sun, 03 Jun 2018 13:41:19: #1 tags after filtering in treatment: 23555876 INFO @ Sun, 03 Jun 2018 13:41:19: #1 Redundant rate of treatment: 0.18 INFO @ Sun, 03 Jun 2018 13:41:19: #1 finished! INFO @ Sun, 03 Jun 2018 13:41:19: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 13:41:19: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 13:41:20: 60000000 INFO @ Sun, 03 Jun 2018 13:41:20: #2 number of paired peaks: 86 WARNING @ Sun, 03 Jun 2018 13:41:20: Too few paired peaks (86) 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 13:41:20: Process for pairing-model is terminated! cat: SRX4085346.10_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 `SRX4085346.10_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 `SRX4085346.10_*.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 `SRX4085346.10_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 @ Sun, 03 Jun 2018 13:41:21: #1 tag size is determined as 51 bps INFO @ Sun, 03 Jun 2018 13:41:21: #1 tag size = 51 INFO @ Sun, 03 Jun 2018 13:41:21: #1 total tags in treatment: 28669624 INFO @ Sun, 03 Jun 2018 13:41:21: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 13:41:21: #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 13:41:22: #1 tags after filtering in treatment: 23555876 INFO @ Sun, 03 Jun 2018 13:41:22: #1 Redundant rate of treatment: 0.18 INFO @ Sun, 03 Jun 2018 13:41:22: #1 finished! INFO @ Sun, 03 Jun 2018 13:41:22: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 13:41:22: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 13:41:24: #2 number of paired peaks: 86 WARNING @ Sun, 03 Jun 2018 13:41:24: Too few paired peaks (86) 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 13:41:24: Process for pairing-model is terminated! cat: SRX4085346.20_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4085346.20_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 `SRX4085346.20_*.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 `SRX4085346.20_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 @ Sun, 03 Jun 2018 13:41:24: 58000000 INFO @ Sun, 03 Jun 2018 13:41:30: 59000000 INFO @ Sun, 03 Jun 2018 13:41:36: 60000000 INFO @ Sun, 03 Jun 2018 13:41:37: #1 tag size is determined as 51 bps INFO @ Sun, 03 Jun 2018 13:41:37: #1 tag size = 51 INFO @ Sun, 03 Jun 2018 13:41:37: #1 total tags in treatment: 28669624 INFO @ Sun, 03 Jun 2018 13:41:37: #1 user defined the maximum tags... INFO @ Sun, 03 Jun 2018 13:41:37: #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 13:41:38: #1 tags after filtering in treatment: 23555876 INFO @ Sun, 03 Jun 2018 13:41:38: #1 Redundant rate of treatment: 0.18 INFO @ Sun, 03 Jun 2018 13:41:38: #1 finished! INFO @ Sun, 03 Jun 2018 13:41:38: #2 Build Peak Model... INFO @ Sun, 03 Jun 2018 13:41:38: #2 looking for paired plus/minus strand peaks... INFO @ Sun, 03 Jun 2018 13:41:40: #2 number of paired peaks: 86 WARNING @ Sun, 03 Jun 2018 13:41:40: Too few paired peaks (86) 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 13:41:40: Process for pairing-model is terminated! cat: SRX4085346.05_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 `SRX4085346.05_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 `SRX4085346.05_*.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 `SRX4085346.05_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。