Job ID = 10608964 sra ファイルのダウンロード中... Completed: 3787851K bytes transferred in 214 seconds (144712K 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... Written 31474409 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2741963/SRR5453797.sra Written 31474409 spots total 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: 00:38:31 31474409 reads; of these: 31474409 (100.00%) were paired; of these: 4423407 (14.05%) aligned concordantly 0 times 24486697 (77.80%) aligned concordantly exactly 1 time 2564305 (8.15%) aligned concordantly >1 times ---- 4423407 pairs aligned concordantly 0 times; of these: 1960211 (44.31%) aligned discordantly 1 time ---- 2463196 pairs aligned 0 times concordantly or discordantly; of these: 4926392 mates make up the pairs; of these: 3250662 (65.98%) aligned 0 times 1137275 (23.09%) aligned exactly 1 time 538455 (10.93%) aligned >1 times 94.84% overall alignment rate Time searching: 00:38:31 Overall time: 00:38:31 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 28 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 chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 565092 / 28851101 = 0.0196 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 @ Thu, 03 May 2018 23:57:51: # Command line: callpeak -t SRX2741963.bam -f BAM -g 12100000 -n SRX2741963.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2741963.10 # format = BAM # ChIP-seq file = ['SRX2741963.bam'] # control file = None # effective genome size = 1.21e+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 @ Thu, 03 May 2018 23:57:51: # Command line: callpeak -t SRX2741963.bam -f BAM -g 12100000 -n SRX2741963.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2741963.05 # format = BAM # ChIP-seq file = ['SRX2741963.bam'] # control file = None # effective genome size = 1.21e+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 @ Thu, 03 May 2018 23:57:51: # Command line: callpeak -t SRX2741963.bam -f BAM -g 12100000 -n SRX2741963.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2741963.20 # format = BAM # ChIP-seq file = ['SRX2741963.bam'] # control file = None # effective genome size = 1.21e+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 @ Thu, 03 May 2018 23:57:51: #1 read tag files... INFO @ Thu, 03 May 2018 23:57:51: #1 read tag files... INFO @ Thu, 03 May 2018 23:57:51: #1 read tag files... INFO @ Thu, 03 May 2018 23:57:51: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:57:51: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:57:51: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:57:58: 1000000 INFO @ Thu, 03 May 2018 23:57:58: 1000000 INFO @ Thu, 03 May 2018 23:57:58: 1000000 INFO @ Thu, 03 May 2018 23:58:05: 2000000 INFO @ Thu, 03 May 2018 23:58:05: 2000000 INFO @ Thu, 03 May 2018 23:58:05: 2000000 INFO @ Thu, 03 May 2018 23:58:12: 3000000 INFO @ Thu, 03 May 2018 23:58:12: 3000000 INFO @ Thu, 03 May 2018 23:58:12: 3000000 INFO @ Thu, 03 May 2018 23:58:18: 4000000 INFO @ Thu, 03 May 2018 23:58:19: 4000000 INFO @ Thu, 03 May 2018 23:58:19: 4000000 INFO @ Thu, 03 May 2018 23:58:25: 5000000 INFO @ Thu, 03 May 2018 23:58:26: 5000000 INFO @ Thu, 03 May 2018 23:58:26: 5000000 INFO @ Thu, 03 May 2018 23:58:31: 6000000 INFO @ Thu, 03 May 2018 23:58:33: 6000000 INFO @ Thu, 03 May 2018 23:58:33: 6000000 INFO @ Thu, 03 May 2018 23:58:38: 7000000 INFO @ Thu, 03 May 2018 23:58:40: 7000000 INFO @ Thu, 03 May 2018 23:58:40: 7000000 INFO @ Thu, 03 May 2018 23:58:45: 8000000 INFO @ Thu, 03 May 2018 23:58:47: 8000000 INFO @ Thu, 03 May 2018 23:58:47: 8000000 INFO @ Thu, 03 May 2018 23:58:51: 9000000 INFO @ Thu, 03 May 2018 23:58:54: 9000000 INFO @ Thu, 03 May 2018 23:58:54: 9000000 INFO @ Thu, 03 May 2018 23:58:58: 10000000 INFO @ Thu, 03 May 2018 23:59:01: 10000000 INFO @ Thu, 03 May 2018 23:59:01: 10000000 INFO @ Thu, 03 May 2018 23:59:05: 11000000 INFO @ Thu, 03 May 2018 23:59:08: 11000000 INFO @ Thu, 03 May 2018 23:59:08: 11000000 INFO @ Thu, 03 May 2018 23:59:11: 12000000 INFO @ Thu, 03 May 2018 23:59:15: 12000000 INFO @ Thu, 03 May 2018 23:59:15: 12000000 INFO @ Thu, 03 May 2018 23:59:18: 13000000 INFO @ Thu, 03 May 2018 23:59:22: 13000000 INFO @ Thu, 03 May 2018 23:59:22: 13000000 INFO @ Thu, 03 May 2018 23:59:25: 14000000 INFO @ Thu, 03 May 2018 23:59:29: 14000000 INFO @ Thu, 03 May 2018 23:59:29: 14000000 INFO @ Thu, 03 May 2018 23:59:31: 15000000 INFO @ Thu, 03 May 2018 23:59:36: 15000000 INFO @ Thu, 03 May 2018 23:59:36: 15000000 INFO @ Thu, 03 May 2018 23:59:38: 16000000 INFO @ Thu, 03 May 2018 23:59:43: 16000000 INFO @ Thu, 03 May 2018 23:59:43: 16000000 INFO @ Thu, 03 May 2018 23:59:44: 17000000 INFO @ Thu, 03 May 2018 23:59:50: 17000000 INFO @ Thu, 03 May 2018 23:59:50: 17000000 INFO @ Thu, 03 May 2018 23:59:51: 18000000 INFO @ Thu, 03 May 2018 23:59:57: 18000000 INFO @ Thu, 03 May 2018 23:59:57: 18000000 INFO @ Thu, 03 May 2018 23:59:58: 19000000 INFO @ Fri, 04 May 2018 00:00:04: 19000000 INFO @ Fri, 04 May 2018 00:00:04: 20000000 INFO @ Fri, 04 May 2018 00:00:04: 19000000 INFO @ Fri, 04 May 2018 00:00:11: 21000000 INFO @ Fri, 04 May 2018 00:00:12: 20000000 INFO @ Fri, 04 May 2018 00:00:12: 20000000 INFO @ Fri, 04 May 2018 00:00:18: 22000000 INFO @ Fri, 04 May 2018 00:00:19: 21000000 INFO @ Fri, 04 May 2018 00:00:19: 21000000 INFO @ Fri, 04 May 2018 00:00:25: 23000000 INFO @ Fri, 04 May 2018 00:00:25: 22000000 INFO @ Fri, 04 May 2018 00:00:26: 22000000 INFO @ Fri, 04 May 2018 00:00:32: 24000000 INFO @ Fri, 04 May 2018 00:00:32: 23000000 INFO @ Fri, 04 May 2018 00:00:34: 23000000 INFO @ Fri, 04 May 2018 00:00:39: 24000000 INFO @ Fri, 04 May 2018 00:00:39: 25000000 INFO @ Fri, 04 May 2018 00:00:41: 24000000 INFO @ Fri, 04 May 2018 00:00:46: 25000000 INFO @ Fri, 04 May 2018 00:00:46: 26000000 INFO @ Fri, 04 May 2018 00:00:49: 25000000 INFO @ Fri, 04 May 2018 00:00:52: 26000000 INFO @ Fri, 04 May 2018 00:00:53: 27000000 INFO @ Fri, 04 May 2018 00:00:56: 26000000 INFO @ Fri, 04 May 2018 00:00:59: 27000000 INFO @ Fri, 04 May 2018 00:01:00: 28000000 INFO @ Fri, 04 May 2018 00:01:03: 27000000 INFO @ Fri, 04 May 2018 00:01:06: 28000000 INFO @ Fri, 04 May 2018 00:01:07: 29000000 INFO @ Fri, 04 May 2018 00:01:11: 28000000 INFO @ Fri, 04 May 2018 00:01:12: 29000000 INFO @ Fri, 04 May 2018 00:01:14: 30000000 INFO @ Fri, 04 May 2018 00:01:18: 29000000 INFO @ Fri, 04 May 2018 00:01:19: 30000000 INFO @ Fri, 04 May 2018 00:01:21: 31000000 INFO @ Fri, 04 May 2018 00:01:26: 30000000 INFO @ Fri, 04 May 2018 00:01:26: 31000000 INFO @ Fri, 04 May 2018 00:01:28: 32000000 INFO @ Fri, 04 May 2018 00:01:32: 32000000 INFO @ Fri, 04 May 2018 00:01:33: 31000000 INFO @ Fri, 04 May 2018 00:01:35: 33000000 INFO @ Fri, 04 May 2018 00:01:39: 33000000 INFO @ Fri, 04 May 2018 00:01:40: 32000000 INFO @ Fri, 04 May 2018 00:01:42: 34000000 INFO @ Fri, 04 May 2018 00:01:46: 34000000 INFO @ Fri, 04 May 2018 00:01:48: 33000000 INFO @ Fri, 04 May 2018 00:01:49: 35000000 INFO @ Fri, 04 May 2018 00:01:52: 35000000 INFO @ Fri, 04 May 2018 00:01:55: 34000000 INFO @ Fri, 04 May 2018 00:01:57: 36000000 INFO @ Fri, 04 May 2018 00:01:59: 36000000 INFO @ Fri, 04 May 2018 00:02:03: 35000000 INFO @ Fri, 04 May 2018 00:02:04: 37000000 INFO @ Fri, 04 May 2018 00:02:05: 37000000 INFO @ Fri, 04 May 2018 00:02:11: 36000000 INFO @ Fri, 04 May 2018 00:02:11: 38000000 INFO @ Fri, 04 May 2018 00:02:12: 38000000 INFO @ Fri, 04 May 2018 00:02:19: 39000000 INFO @ Fri, 04 May 2018 00:02:19: 39000000 INFO @ Fri, 04 May 2018 00:02:19: 37000000 INFO @ Fri, 04 May 2018 00:02:25: 40000000 INFO @ Fri, 04 May 2018 00:02:26: 40000000 INFO @ Fri, 04 May 2018 00:02:27: 38000000 INFO @ Fri, 04 May 2018 00:02:32: 41000000 INFO @ Fri, 04 May 2018 00:02:34: 41000000 INFO @ Fri, 04 May 2018 00:02:35: 39000000 INFO @ Fri, 04 May 2018 00:02:39: 42000000 INFO @ Fri, 04 May 2018 00:02:41: 42000000 INFO @ Fri, 04 May 2018 00:02:43: 40000000 INFO @ Fri, 04 May 2018 00:02:46: 43000000 INFO @ Fri, 04 May 2018 00:02:49: 43000000 INFO @ Fri, 04 May 2018 00:02:49: 41000000 INFO @ Fri, 04 May 2018 00:02:53: 44000000 INFO @ Fri, 04 May 2018 00:02:56: 44000000 INFO @ Fri, 04 May 2018 00:02:56: 42000000 INFO @ Fri, 04 May 2018 00:03:01: 45000000 INFO @ Fri, 04 May 2018 00:03:03: 43000000 INFO @ Fri, 04 May 2018 00:03:04: 45000000 INFO @ Fri, 04 May 2018 00:03:09: 46000000 INFO @ Fri, 04 May 2018 00:03:10: 44000000 INFO @ Fri, 04 May 2018 00:03:11: 46000000 INFO @ Fri, 04 May 2018 00:03:16: 47000000 INFO @ Fri, 04 May 2018 00:03:16: 45000000 INFO @ Fri, 04 May 2018 00:03:19: 47000000 INFO @ Fri, 04 May 2018 00:03:23: 46000000 INFO @ Fri, 04 May 2018 00:03:24: 48000000 INFO @ Fri, 04 May 2018 00:03:26: 48000000 INFO @ Fri, 04 May 2018 00:03:30: 47000000 INFO @ Fri, 04 May 2018 00:03:31: 49000000 INFO @ Fri, 04 May 2018 00:03:34: 49000000 INFO @ Fri, 04 May 2018 00:03:37: 48000000 INFO @ Fri, 04 May 2018 00:03:39: 50000000 INFO @ Fri, 04 May 2018 00:03:41: 50000000 INFO @ Fri, 04 May 2018 00:03:43: 49000000 INFO @ Fri, 04 May 2018 00:03:46: 51000000 INFO @ Fri, 04 May 2018 00:03:49: 51000000 INFO @ Fri, 04 May 2018 00:03:50: 50000000 INFO @ Fri, 04 May 2018 00:03:54: 52000000 INFO @ Fri, 04 May 2018 00:03:56: 52000000 INFO @ Fri, 04 May 2018 00:03:57: 51000000 INFO @ Fri, 04 May 2018 00:04:01: 53000000 INFO @ Fri, 04 May 2018 00:04:04: 52000000 INFO @ Fri, 04 May 2018 00:04:04: 53000000 INFO @ Fri, 04 May 2018 00:04:09: 54000000 INFO @ Fri, 04 May 2018 00:04:10: 53000000 INFO @ Fri, 04 May 2018 00:04:11: 54000000 INFO @ Fri, 04 May 2018 00:04:16: 55000000 INFO @ Fri, 04 May 2018 00:04:17: 54000000 INFO @ Fri, 04 May 2018 00:04:19: 55000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 04 May 2018 00:04:24: 56000000 INFO @ Fri, 04 May 2018 00:04:24: 55000000 INFO @ Fri, 04 May 2018 00:04:26: 56000000 INFO @ Fri, 04 May 2018 00:04:31: 56000000 INFO @ Fri, 04 May 2018 00:04:31: 57000000 INFO @ Fri, 04 May 2018 00:04:34: 57000000 INFO @ Fri, 04 May 2018 00:04:37: 57000000 INFO @ Fri, 04 May 2018 00:04:39: 58000000 INFO @ Fri, 04 May 2018 00:04:42: 58000000 INFO @ Fri, 04 May 2018 00:04:43: #1 tag size is determined as 100 bps INFO @ Fri, 04 May 2018 00:04:43: #1 tag size = 100 INFO @ Fri, 04 May 2018 00:04:43: #1 total tags in treatment: 26503174 INFO @ Fri, 04 May 2018 00:04:43: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 00:04:43: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 04 May 2018 00:04:44: #1 tags after filtering in treatment: 14864254 INFO @ Fri, 04 May 2018 00:04:44: #1 Redundant rate of treatment: 0.44 INFO @ Fri, 04 May 2018 00:04:44: #1 finished! INFO @ Fri, 04 May 2018 00:04:44: #2 Build Peak Model... INFO @ Fri, 04 May 2018 00:04:44: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 00:04:44: 58000000 INFO @ Fri, 04 May 2018 00:04:45: #2 number of paired peaks: 0 WARNING @ Fri, 04 May 2018 00:04:45: Too few paired peaks (0) 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 @ Fri, 04 May 2018 00:04:45: Process for pairing-model is terminated! cat: SRX2741963.05_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 `SRX2741963.05_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 `SRX2741963.05_*.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 `SRX2741963.05_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 BigWig に変換しました。 INFO @ Fri, 04 May 2018 00:04:46: #1 tag size is determined as 100 bps INFO @ Fri, 04 May 2018 00:04:46: #1 tag size = 100 INFO @ Fri, 04 May 2018 00:04:46: #1 total tags in treatment: 26503174 INFO @ Fri, 04 May 2018 00:04:46: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 00:04:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 04 May 2018 00:04:47: #1 tags after filtering in treatment: 14864254 INFO @ Fri, 04 May 2018 00:04:47: #1 Redundant rate of treatment: 0.44 INFO @ Fri, 04 May 2018 00:04:47: #1 finished! INFO @ Fri, 04 May 2018 00:04:47: #2 Build Peak Model... INFO @ Fri, 04 May 2018 00:04:47: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 00:04:47: #2 number of paired peaks: 0 WARNING @ Fri, 04 May 2018 00:04:47: Too few paired peaks (0) 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 @ Fri, 04 May 2018 00:04:47: Process for pairing-model is terminated! cat: SRX2741963.10_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 `SRX2741963.10_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 `SRX2741963.10_*.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 `SRX2741963.10_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 @ Fri, 04 May 2018 00:04:48: #1 tag size is determined as 100 bps INFO @ Fri, 04 May 2018 00:04:48: #1 tag size = 100 INFO @ Fri, 04 May 2018 00:04:48: #1 total tags in treatment: 26503174 INFO @ Fri, 04 May 2018 00:04:48: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 00:04:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 04 May 2018 00:04:49: #1 tags after filtering in treatment: 14864254 INFO @ Fri, 04 May 2018 00:04:49: #1 Redundant rate of treatment: 0.44 INFO @ Fri, 04 May 2018 00:04:49: #1 finished! INFO @ Fri, 04 May 2018 00:04:49: #2 Build Peak Model... INFO @ Fri, 04 May 2018 00:04:49: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 00:04:50: #2 number of paired peaks: 0 WARNING @ Fri, 04 May 2018 00:04:50: Too few paired peaks (0) 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 @ Fri, 04 May 2018 00:04:50: Process for pairing-model is terminated! cat: SRX2741963.20_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 `SRX2741963.20_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 `SRX2741963.20_*.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 `SRX2741963.20_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