Job ID = 9162110 sra ファイルのダウンロード中... Completed: 1336297K bytes transferred in 10 seconds (1016502K bits/sec), in 1 file, 2 directories. 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 27427541 spots for /home/okishinya/chipatlas/results/sacCer3/SRX1631851/SRR3225790.sra Written 27427541 spots total 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: 00:22:51 27427541 reads; of these: 27427541 (100.00%) were paired; of these: 1418197 (5.17%) aligned concordantly 0 times 22609404 (82.43%) aligned concordantly exactly 1 time 3399940 (12.40%) aligned concordantly >1 times ---- 1418197 pairs aligned concordantly 0 times; of these: 345687 (24.38%) aligned discordantly 1 time ---- 1072510 pairs aligned 0 times concordantly or discordantly; of these: 2145020 mates make up the pairs; of these: 1754658 (81.80%) aligned 0 times 211954 (9.88%) aligned exactly 1 time 178408 (8.32%) aligned >1 times 96.80% overall alignment rate Time searching: 00:22:51 Overall time: 00:22:51 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 24 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] 990609 / 26228237 = 0.0378 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, 28 Jun 2017 06:32:45: # Command line: callpeak -t SRX1631851.bam -f BAM -g 12100000 -n SRX1631851.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX1631851.20 # format = BAM # ChIP-seq file = ['SRX1631851.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 @ Wed, 28 Jun 2017 06:32:45: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:32:45: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:32:45: # Command line: callpeak -t SRX1631851.bam -f BAM -g 12100000 -n SRX1631851.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX1631851.10 # format = BAM # ChIP-seq file = ['SRX1631851.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 @ Wed, 28 Jun 2017 06:32:45: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:32:45: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:32:45: # Command line: callpeak -t SRX1631851.bam -f BAM -g 12100000 -n SRX1631851.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX1631851.05 # format = BAM # ChIP-seq file = ['SRX1631851.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 @ Wed, 28 Jun 2017 06:32:45: #1 read tag files... INFO @ Wed, 28 Jun 2017 06:32:45: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 06:32:54: 1000000 INFO @ Wed, 28 Jun 2017 06:32:54: 1000000 INFO @ Wed, 28 Jun 2017 06:32:55: 1000000 INFO @ Wed, 28 Jun 2017 06:33:03: 2000000 INFO @ Wed, 28 Jun 2017 06:33:03: 2000000 INFO @ Wed, 28 Jun 2017 06:33:05: 2000000 INFO @ Wed, 28 Jun 2017 06:33:11: 3000000 INFO @ Wed, 28 Jun 2017 06:33:11: 3000000 INFO @ Wed, 28 Jun 2017 06:33:15: 3000000 INFO @ Wed, 28 Jun 2017 06:33:20: 4000000 INFO @ Wed, 28 Jun 2017 06:33:20: 4000000 INFO @ Wed, 28 Jun 2017 06:33:26: 4000000 INFO @ Wed, 28 Jun 2017 06:33:28: 5000000 INFO @ Wed, 28 Jun 2017 06:33:29: 5000000 INFO @ Wed, 28 Jun 2017 06:33:35: 5000000 INFO @ Wed, 28 Jun 2017 06:33:37: 6000000 INFO @ Wed, 28 Jun 2017 06:33:37: 6000000 INFO @ Wed, 28 Jun 2017 06:33:43: 6000000 INFO @ Wed, 28 Jun 2017 06:33:45: 7000000 INFO @ Wed, 28 Jun 2017 06:33:45: 7000000 INFO @ Wed, 28 Jun 2017 06:33:51: 7000000 INFO @ Wed, 28 Jun 2017 06:33:53: 8000000 INFO @ Wed, 28 Jun 2017 06:33:55: 8000000 INFO @ Wed, 28 Jun 2017 06:33:59: 8000000 INFO @ Wed, 28 Jun 2017 06:34:01: 9000000 INFO @ Wed, 28 Jun 2017 06:34:04: 9000000 INFO @ Wed, 28 Jun 2017 06:34:07: 9000000 INFO @ Wed, 28 Jun 2017 06:34:09: 10000000 INFO @ Wed, 28 Jun 2017 06:34:13: 10000000 INFO @ Wed, 28 Jun 2017 06:34:15: 10000000 INFO @ Wed, 28 Jun 2017 06:34:17: 11000000 INFO @ Wed, 28 Jun 2017 06:34:23: 11000000 INFO @ Wed, 28 Jun 2017 06:34:23: 11000000 INFO @ Wed, 28 Jun 2017 06:34:25: 12000000 INFO @ Wed, 28 Jun 2017 06:34:31: 12000000 INFO @ Wed, 28 Jun 2017 06:34:32: 12000000 INFO @ Wed, 28 Jun 2017 06:34:33: 13000000 INFO @ Wed, 28 Jun 2017 06:34:39: 13000000 INFO @ Wed, 28 Jun 2017 06:34:41: 14000000 INFO @ Wed, 28 Jun 2017 06:34:42: 13000000 INFO @ Wed, 28 Jun 2017 06:34:47: 14000000 INFO @ Wed, 28 Jun 2017 06:34:49: 15000000 INFO @ Wed, 28 Jun 2017 06:34:51: 14000000 INFO @ Wed, 28 Jun 2017 06:34:54: 15000000 INFO @ Wed, 28 Jun 2017 06:34:57: 16000000 INFO @ Wed, 28 Jun 2017 06:35:00: 15000000 INFO @ Wed, 28 Jun 2017 06:35:00: 16000000 INFO @ Wed, 28 Jun 2017 06:35:04: 17000000 INFO @ Wed, 28 Jun 2017 06:35:07: 17000000 INFO @ Wed, 28 Jun 2017 06:35:09: 16000000 INFO @ Wed, 28 Jun 2017 06:35:12: 18000000 INFO @ Wed, 28 Jun 2017 06:35:14: 18000000 INFO @ Wed, 28 Jun 2017 06:35:18: 17000000 INFO @ Wed, 28 Jun 2017 06:35:19: 19000000 INFO @ Wed, 28 Jun 2017 06:35:21: 19000000 INFO @ Wed, 28 Jun 2017 06:35:26: 18000000 INFO @ Wed, 28 Jun 2017 06:35:27: 20000000 INFO @ Wed, 28 Jun 2017 06:35:27: 20000000 INFO @ Wed, 28 Jun 2017 06:35:34: 21000000 INFO @ Wed, 28 Jun 2017 06:35:34: 21000000 INFO @ Wed, 28 Jun 2017 06:35:35: 19000000 INFO @ Wed, 28 Jun 2017 06:35:41: 22000000 INFO @ Wed, 28 Jun 2017 06:35:42: 22000000 INFO @ Wed, 28 Jun 2017 06:35:44: 20000000 INFO @ Wed, 28 Jun 2017 06:35:47: 23000000 INFO @ Wed, 28 Jun 2017 06:35:49: 23000000 INFO @ Wed, 28 Jun 2017 06:35:52: 21000000 INFO @ Wed, 28 Jun 2017 06:35:53: 24000000 INFO @ Wed, 28 Jun 2017 06:35:56: 24000000 INFO @ Wed, 28 Jun 2017 06:35:58: 25000000 INFO @ Wed, 28 Jun 2017 06:36:00: 22000000 INFO @ Wed, 28 Jun 2017 06:36:03: 25000000 INFO @ Wed, 28 Jun 2017 06:36:04: 26000000 INFO @ Wed, 28 Jun 2017 06:36:09: 23000000 INFO @ Wed, 28 Jun 2017 06:36:10: 27000000 INFO @ Wed, 28 Jun 2017 06:36:10: 26000000 INFO @ Wed, 28 Jun 2017 06:36:16: 28000000 INFO @ Wed, 28 Jun 2017 06:36:17: 24000000 INFO @ Wed, 28 Jun 2017 06:36:17: 27000000 INFO @ Wed, 28 Jun 2017 06:36:21: 29000000 INFO @ Wed, 28 Jun 2017 06:36:24: 28000000 INFO @ Wed, 28 Jun 2017 06:36:25: 25000000 INFO @ Wed, 28 Jun 2017 06:36:27: 30000000 INFO @ Wed, 28 Jun 2017 06:36:32: 29000000 INFO @ Wed, 28 Jun 2017 06:36:33: 31000000 INFO @ Wed, 28 Jun 2017 06:36:33: 26000000 INFO @ Wed, 28 Jun 2017 06:36:39: 30000000 INFO @ Wed, 28 Jun 2017 06:36:39: 32000000 INFO @ Wed, 28 Jun 2017 06:36:41: 27000000 INFO @ Wed, 28 Jun 2017 06:36:44: 33000000 INFO @ Wed, 28 Jun 2017 06:36:45: 31000000 INFO @ Wed, 28 Jun 2017 06:36:48: 28000000 INFO @ Wed, 28 Jun 2017 06:36:50: 34000000 INFO @ Wed, 28 Jun 2017 06:36:51: 32000000 INFO @ Wed, 28 Jun 2017 06:36:55: 29000000 INFO @ Wed, 28 Jun 2017 06:36:56: 35000000 INFO @ Wed, 28 Jun 2017 06:36:58: 33000000 INFO @ Wed, 28 Jun 2017 06:37:02: 36000000 INFO @ Wed, 28 Jun 2017 06:37:02: 30000000 INFO @ Wed, 28 Jun 2017 06:37:04: 34000000 INFO @ Wed, 28 Jun 2017 06:37:08: 37000000 INFO @ Wed, 28 Jun 2017 06:37:10: 31000000 INFO @ Wed, 28 Jun 2017 06:37:11: 35000000 INFO @ Wed, 28 Jun 2017 06:37:13: 38000000 INFO @ Wed, 28 Jun 2017 06:37:17: 32000000 INFO @ Wed, 28 Jun 2017 06:37:18: 36000000 INFO @ Wed, 28 Jun 2017 06:37:19: 39000000 INFO @ Wed, 28 Jun 2017 06:37:24: 37000000 INFO @ Wed, 28 Jun 2017 06:37:25: 33000000 INFO @ Wed, 28 Jun 2017 06:37:25: 40000000 INFO @ Wed, 28 Jun 2017 06:37:31: 38000000 INFO @ Wed, 28 Jun 2017 06:37:31: 41000000 INFO @ Wed, 28 Jun 2017 06:37:32: 34000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 28 Jun 2017 06:37:37: 42000000 INFO @ Wed, 28 Jun 2017 06:37:37: 39000000 INFO @ Wed, 28 Jun 2017 06:37:39: 35000000 INFO @ Wed, 28 Jun 2017 06:37:43: 43000000 INFO @ Wed, 28 Jun 2017 06:37:44: 40000000 INFO @ Wed, 28 Jun 2017 06:37:47: 36000000 INFO @ Wed, 28 Jun 2017 06:37:49: 44000000 INFO @ Wed, 28 Jun 2017 06:37:50: 41000000 INFO @ Wed, 28 Jun 2017 06:37:54: 37000000 INFO @ Wed, 28 Jun 2017 06:37:55: 45000000 BigWig に変換しました。 INFO @ Wed, 28 Jun 2017 06:37:57: 42000000 INFO @ Wed, 28 Jun 2017 06:38:01: 46000000 INFO @ Wed, 28 Jun 2017 06:38:01: 38000000 INFO @ Wed, 28 Jun 2017 06:38:03: 43000000 INFO @ Wed, 28 Jun 2017 06:38:07: 47000000 INFO @ Wed, 28 Jun 2017 06:38:09: 39000000 INFO @ Wed, 28 Jun 2017 06:38:10: 44000000 INFO @ Wed, 28 Jun 2017 06:38:13: 48000000 INFO @ Wed, 28 Jun 2017 06:38:16: 40000000 INFO @ Wed, 28 Jun 2017 06:38:16: 45000000 INFO @ Wed, 28 Jun 2017 06:38:19: 49000000 INFO @ Wed, 28 Jun 2017 06:38:23: 46000000 INFO @ Wed, 28 Jun 2017 06:38:24: 41000000 INFO @ Wed, 28 Jun 2017 06:38:26: 50000000 INFO @ Wed, 28 Jun 2017 06:38:30: 47000000 INFO @ Wed, 28 Jun 2017 06:38:31: 42000000 INFO @ Wed, 28 Jun 2017 06:38:32: 51000000 INFO @ Wed, 28 Jun 2017 06:38:33: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:38:33: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:38:33: #1 total tags in treatment: 25020798 INFO @ Wed, 28 Jun 2017 06:38:33: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:38:33: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 06:38:33: #1 tags after filtering in treatment: 14274338 INFO @ Wed, 28 Jun 2017 06:38:33: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 28 Jun 2017 06:38:33: #1 finished! INFO @ Wed, 28 Jun 2017 06:38:33: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:38:33: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:38:34: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:38:34: 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 @ Wed, 28 Jun 2017 06:38:34: Process for pairing-model is terminated! cat: SRX1631851.20_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 `SRX1631851.20_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 `SRX1631851.20_*.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 `SRX1631851.20_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, 28 Jun 2017 06:38:37: 48000000 INFO @ Wed, 28 Jun 2017 06:38:39: 43000000 INFO @ Wed, 28 Jun 2017 06:38:43: 49000000 INFO @ Wed, 28 Jun 2017 06:38:46: 44000000 INFO @ Wed, 28 Jun 2017 06:38:50: 50000000 INFO @ Wed, 28 Jun 2017 06:38:54: 45000000 INFO @ Wed, 28 Jun 2017 06:38:57: 51000000 INFO @ Wed, 28 Jun 2017 06:38:58: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:38:58: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:38:58: #1 total tags in treatment: 25020798 INFO @ Wed, 28 Jun 2017 06:38:58: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:38:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 06:38:58: #1 tags after filtering in treatment: 14274338 INFO @ Wed, 28 Jun 2017 06:38:58: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 28 Jun 2017 06:38:58: #1 finished! INFO @ Wed, 28 Jun 2017 06:38:58: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:38:58: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:38:59: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:38:59: 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 @ Wed, 28 Jun 2017 06:38:59: Process for pairing-model is terminated! cat: SRX1631851.10_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 `SRX1631851.10_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 `SRX1631851.10_*.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 `SRX1631851.10_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, 28 Jun 2017 06:39:01: 46000000 INFO @ Wed, 28 Jun 2017 06:39:07: 47000000 INFO @ Wed, 28 Jun 2017 06:39:14: 48000000 INFO @ Wed, 28 Jun 2017 06:39:20: 49000000 INFO @ Wed, 28 Jun 2017 06:39:27: 50000000 INFO @ Wed, 28 Jun 2017 06:39:33: 51000000 INFO @ Wed, 28 Jun 2017 06:39:34: #1 tag size is determined as 50 bps INFO @ Wed, 28 Jun 2017 06:39:34: #1 tag size = 50 INFO @ Wed, 28 Jun 2017 06:39:34: #1 total tags in treatment: 25020798 INFO @ Wed, 28 Jun 2017 06:39:34: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 06:39:34: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 06:39:35: #1 tags after filtering in treatment: 14274338 INFO @ Wed, 28 Jun 2017 06:39:35: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 28 Jun 2017 06:39:35: #1 finished! INFO @ Wed, 28 Jun 2017 06:39:35: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 06:39:35: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 06:39:35: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 06:39:35: 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 @ Wed, 28 Jun 2017 06:39:35: Process for pairing-model is terminated! cat: SRX1631851.05_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 `SRX1631851.05_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 `SRX1631851.05_*.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 `SRX1631851.05_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