Job ID = 10045046 sra ファイルのダウンロード中... Completed: 1501195K bytes transferred in 46 seconds (265755K bits/sec), in 2 files, 3 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 31111119 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2704972/SRR5413022.sra Written 31111119 spots total Written 31965001 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2704972/SRR5413021.sra Written 31965001 spots total 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: 00:25:56 63076120 reads; of these: 63076120 (100.00%) were paired; of these: 19951742 (31.63%) aligned concordantly 0 times 37533819 (59.51%) aligned concordantly exactly 1 time 5590559 (8.86%) aligned concordantly >1 times ---- 19951742 pairs aligned concordantly 0 times; of these: 3281199 (16.45%) aligned discordantly 1 time ---- 16670543 pairs aligned 0 times concordantly or discordantly; of these: 33341086 mates make up the pairs; of these: 26981283 (80.93%) aligned 0 times 4525775 (13.57%) aligned exactly 1 time 1834028 (5.50%) aligned >1 times 78.61% overall alignment rate Time searching: 00:25:56 Overall time: 00:25:56 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 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] 20195582 / 43678162 = 0.4624 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 @ Mon, 02 Oct 2017 15:27:00: # Command line: callpeak -t SRX2704972.bam -f BAM -g 12100000 -n SRX2704972.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2704972.20 # format = BAM # ChIP-seq file = ['SRX2704972.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 @ Mon, 02 Oct 2017 15:27:00: #1 read tag files... INFO @ Mon, 02 Oct 2017 15:27:00: #1 read treatment tags... INFO @ Mon, 02 Oct 2017 15:27:00: # Command line: callpeak -t SRX2704972.bam -f BAM -g 12100000 -n SRX2704972.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2704972.05 # format = BAM # ChIP-seq file = ['SRX2704972.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 @ Mon, 02 Oct 2017 15:27:00: #1 read tag files... INFO @ Mon, 02 Oct 2017 15:27:00: #1 read treatment tags... INFO @ Mon, 02 Oct 2017 15:27:00: # Command line: callpeak -t SRX2704972.bam -f BAM -g 12100000 -n SRX2704972.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2704972.10 # format = BAM # ChIP-seq file = ['SRX2704972.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 @ Mon, 02 Oct 2017 15:27:00: #1 read tag files... INFO @ Mon, 02 Oct 2017 15:27:00: #1 read treatment tags... INFO @ Mon, 02 Oct 2017 15:27:04: 1000000 INFO @ Mon, 02 Oct 2017 15:27:04: 1000000 INFO @ Mon, 02 Oct 2017 15:27:05: 1000000 INFO @ Mon, 02 Oct 2017 15:27:09: 2000000 INFO @ Mon, 02 Oct 2017 15:27:09: 2000000 INFO @ Mon, 02 Oct 2017 15:27:09: 2000000 INFO @ Mon, 02 Oct 2017 15:27:14: 3000000 INFO @ Mon, 02 Oct 2017 15:27:14: 3000000 INFO @ Mon, 02 Oct 2017 15:27:14: 3000000 INFO @ Mon, 02 Oct 2017 15:27:18: 4000000 INFO @ Mon, 02 Oct 2017 15:27:18: 4000000 INFO @ Mon, 02 Oct 2017 15:27:19: 4000000 INFO @ Mon, 02 Oct 2017 15:27:23: 5000000 INFO @ Mon, 02 Oct 2017 15:27:23: 5000000 INFO @ Mon, 02 Oct 2017 15:27:23: 5000000 INFO @ Mon, 02 Oct 2017 15:27:28: 6000000 INFO @ Mon, 02 Oct 2017 15:27:28: 6000000 INFO @ Mon, 02 Oct 2017 15:27:28: 6000000 INFO @ Mon, 02 Oct 2017 15:27:32: 7000000 INFO @ Mon, 02 Oct 2017 15:27:32: 7000000 INFO @ Mon, 02 Oct 2017 15:27:33: 7000000 INFO @ Mon, 02 Oct 2017 15:27:37: 8000000 INFO @ Mon, 02 Oct 2017 15:27:37: 8000000 INFO @ Mon, 02 Oct 2017 15:27:37: 8000000 INFO @ Mon, 02 Oct 2017 15:27:41: 9000000 INFO @ Mon, 02 Oct 2017 15:27:42: 9000000 INFO @ Mon, 02 Oct 2017 15:27:42: 9000000 INFO @ Mon, 02 Oct 2017 15:27:46: 10000000 INFO @ Mon, 02 Oct 2017 15:27:46: 10000000 INFO @ Mon, 02 Oct 2017 15:27:47: 10000000 INFO @ Mon, 02 Oct 2017 15:27:51: 11000000 INFO @ Mon, 02 Oct 2017 15:27:51: 11000000 INFO @ Mon, 02 Oct 2017 15:27:52: 11000000 INFO @ Mon, 02 Oct 2017 15:27:55: 12000000 INFO @ Mon, 02 Oct 2017 15:27:56: 12000000 INFO @ Mon, 02 Oct 2017 15:27:57: 12000000 INFO @ Mon, 02 Oct 2017 15:28:00: 13000000 INFO @ Mon, 02 Oct 2017 15:28:01: 13000000 INFO @ Mon, 02 Oct 2017 15:28:02: 13000000 INFO @ Mon, 02 Oct 2017 15:28:05: 14000000 INFO @ Mon, 02 Oct 2017 15:28:05: 14000000 INFO @ Mon, 02 Oct 2017 15:28:07: 14000000 INFO @ Mon, 02 Oct 2017 15:28:09: 15000000 INFO @ Mon, 02 Oct 2017 15:28:10: 15000000 INFO @ Mon, 02 Oct 2017 15:28:12: 15000000 INFO @ Mon, 02 Oct 2017 15:28:14: 16000000 INFO @ Mon, 02 Oct 2017 15:28:15: 16000000 INFO @ Mon, 02 Oct 2017 15:28:16: 16000000 INFO @ Mon, 02 Oct 2017 15:28:18: 17000000 INFO @ Mon, 02 Oct 2017 15:28:20: 17000000 INFO @ Mon, 02 Oct 2017 15:28:21: 17000000 INFO @ Mon, 02 Oct 2017 15:28:23: 18000000 INFO @ Mon, 02 Oct 2017 15:28:25: 18000000 INFO @ Mon, 02 Oct 2017 15:28:26: 18000000 INFO @ Mon, 02 Oct 2017 15:28:27: 19000000 INFO @ Mon, 02 Oct 2017 15:28:29: 19000000 INFO @ Mon, 02 Oct 2017 15:28:31: 19000000 INFO @ Mon, 02 Oct 2017 15:28:32: 20000000 INFO @ Mon, 02 Oct 2017 15:28:34: 20000000 INFO @ Mon, 02 Oct 2017 15:28:36: 20000000 INFO @ Mon, 02 Oct 2017 15:28:36: 21000000 INFO @ Mon, 02 Oct 2017 15:28:39: 21000000 INFO @ Mon, 02 Oct 2017 15:28:41: 21000000 INFO @ Mon, 02 Oct 2017 15:28:41: 22000000 INFO @ Mon, 02 Oct 2017 15:28:43: 22000000 INFO @ Mon, 02 Oct 2017 15:28:45: 22000000 INFO @ Mon, 02 Oct 2017 15:28:46: 23000000 INFO @ Mon, 02 Oct 2017 15:28:48: 23000000 INFO @ Mon, 02 Oct 2017 15:28:50: 23000000 INFO @ Mon, 02 Oct 2017 15:28:50: 24000000 INFO @ Mon, 02 Oct 2017 15:28:53: 24000000 INFO @ Mon, 02 Oct 2017 15:28:55: 25000000 INFO @ Mon, 02 Oct 2017 15:28:55: 24000000 INFO @ Mon, 02 Oct 2017 15:28:57: 25000000 INFO @ Mon, 02 Oct 2017 15:28:59: 26000000 INFO @ Mon, 02 Oct 2017 15:28:59: 25000000 INFO @ Mon, 02 Oct 2017 15:29:02: 26000000 INFO @ Mon, 02 Oct 2017 15:29:04: 27000000 INFO @ Mon, 02 Oct 2017 15:29:04: 26000000 INFO @ Mon, 02 Oct 2017 15:29:07: 27000000 INFO @ Mon, 02 Oct 2017 15:29:08: 28000000 INFO @ Mon, 02 Oct 2017 15:29:09: 27000000 INFO @ Mon, 02 Oct 2017 15:29:12: 28000000 INFO @ Mon, 02 Oct 2017 15:29:13: 29000000 INFO @ Mon, 02 Oct 2017 15:29:14: 28000000 INFO @ Mon, 02 Oct 2017 15:29:17: 29000000 INFO @ Mon, 02 Oct 2017 15:29:18: 30000000 INFO @ Mon, 02 Oct 2017 15:29:19: 29000000 INFO @ Mon, 02 Oct 2017 15:29:21: 30000000 INFO @ Mon, 02 Oct 2017 15:29:22: 31000000 INFO @ Mon, 02 Oct 2017 15:29:24: 30000000 INFO @ Mon, 02 Oct 2017 15:29:26: 31000000 INFO @ Mon, 02 Oct 2017 15:29:27: 32000000 INFO @ Mon, 02 Oct 2017 15:29:29: 31000000 INFO @ Mon, 02 Oct 2017 15:29:31: 32000000 INFO @ Mon, 02 Oct 2017 15:29:31: 33000000 INFO @ Mon, 02 Oct 2017 15:29:34: 32000000 INFO @ Mon, 02 Oct 2017 15:29:36: 34000000 INFO @ Mon, 02 Oct 2017 15:29:36: 33000000 INFO @ Mon, 02 Oct 2017 15:29:39: 33000000 INFO @ Mon, 02 Oct 2017 15:29:40: 35000000 INFO @ Mon, 02 Oct 2017 15:29:41: 34000000 INFO @ Mon, 02 Oct 2017 15:29:44: 34000000 INFO @ Mon, 02 Oct 2017 15:29:45: 36000000 INFO @ Mon, 02 Oct 2017 15:29:46: 35000000 INFO @ Mon, 02 Oct 2017 15:29:49: 37000000 INFO @ Mon, 02 Oct 2017 15:29:49: 35000000 INFO @ Mon, 02 Oct 2017 15:29:50: 36000000 INFO @ Mon, 02 Oct 2017 15:29:53: 38000000 INFO @ Mon, 02 Oct 2017 15:29:54: 36000000 INFO @ Mon, 02 Oct 2017 15:29:55: 37000000 INFO @ Mon, 02 Oct 2017 15:29:58: 39000000 INFO @ Mon, 02 Oct 2017 15:29:59: 37000000 INFO @ Mon, 02 Oct 2017 15:29:59: 38000000 INFO @ Mon, 02 Oct 2017 15:30:02: 40000000 INFO @ Mon, 02 Oct 2017 15:30:03: 38000000 INFO @ Mon, 02 Oct 2017 15:30:04: 39000000 INFO @ Mon, 02 Oct 2017 15:30:07: 41000000 INFO @ Mon, 02 Oct 2017 15:30:08: 39000000 INFO @ Mon, 02 Oct 2017 15:30:09: 40000000 INFO @ Mon, 02 Oct 2017 15:30:11: 42000000 INFO @ Mon, 02 Oct 2017 15:30:13: 40000000 INFO @ Mon, 02 Oct 2017 15:30:14: 41000000 INFO @ Mon, 02 Oct 2017 15:30:16: 43000000 INFO @ Mon, 02 Oct 2017 15:30:18: 41000000 INFO @ Mon, 02 Oct 2017 15:30:19: 42000000 INFO @ Mon, 02 Oct 2017 15:30:21: 44000000 INFO @ Mon, 02 Oct 2017 15:30:23: 42000000 INFO @ Mon, 02 Oct 2017 15:30:23: 43000000 INFO @ Mon, 02 Oct 2017 15:30:25: 45000000 INFO @ Mon, 02 Oct 2017 15:30:28: 43000000 INFO @ Mon, 02 Oct 2017 15:30:28: 44000000 INFO @ Mon, 02 Oct 2017 15:30:30: 46000000 INFO @ Mon, 02 Oct 2017 15:30:33: 44000000 INFO @ Mon, 02 Oct 2017 15:30:33: 45000000 INFO @ Mon, 02 Oct 2017 15:30:34: 47000000 INFO @ Mon, 02 Oct 2017 15:30:38: 45000000 INFO @ Mon, 02 Oct 2017 15:30:38: 46000000 INFO @ Mon, 02 Oct 2017 15:30:39: 48000000 INFO @ Mon, 02 Oct 2017 15:30:43: 47000000 INFO @ Mon, 02 Oct 2017 15:30:43: 46000000 INFO @ Mon, 02 Oct 2017 15:30:43: 49000000 INFO @ Mon, 02 Oct 2017 15:30:47: 48000000 INFO @ Mon, 02 Oct 2017 15:30:48: 47000000 INFO @ Mon, 02 Oct 2017 15:30:48: 50000000 INFO @ Mon, 02 Oct 2017 15:30:52: 49000000 INFO @ Mon, 02 Oct 2017 15:30:52: 51000000 INFO @ Mon, 02 Oct 2017 15:30:52: 48000000 INFO @ Mon, 02 Oct 2017 15:30:57: 52000000 INFO @ Mon, 02 Oct 2017 15:30:57: 50000000 INFO @ Mon, 02 Oct 2017 15:30:57: 49000000 INFO @ Mon, 02 Oct 2017 15:31:01: 53000000 INFO @ Mon, 02 Oct 2017 15:31:02: 51000000 INFO @ Mon, 02 Oct 2017 15:31:02: 50000000 INFO @ Mon, 02 Oct 2017 15:31:06: 54000000 INFO @ Mon, 02 Oct 2017 15:31:07: 52000000 INFO @ Mon, 02 Oct 2017 15:31:07: 51000000 INFO @ Mon, 02 Oct 2017 15:31:10: 55000000 INFO @ Mon, 02 Oct 2017 15:31:11: 53000000 INFO @ Mon, 02 Oct 2017 15:31:12: 52000000 INFO @ Mon, 02 Oct 2017 15:31:15: 56000000 INFO @ Mon, 02 Oct 2017 15:31:16: 54000000 INFO @ Mon, 02 Oct 2017 15:31:17: 53000000 INFO @ Mon, 02 Oct 2017 15:31:20: 57000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Mon, 02 Oct 2017 15:31:21: 55000000 INFO @ Mon, 02 Oct 2017 15:31:22: 54000000 INFO @ Mon, 02 Oct 2017 15:31:24: 58000000 INFO @ Mon, 02 Oct 2017 15:31:26: 56000000 INFO @ Mon, 02 Oct 2017 15:31:27: 55000000 INFO @ Mon, 02 Oct 2017 15:31:28: #1 tag size is determined as 25 bps INFO @ Mon, 02 Oct 2017 15:31:28: #1 tag size = 25 INFO @ Mon, 02 Oct 2017 15:31:28: #1 total tags in treatment: 22934786 INFO @ Mon, 02 Oct 2017 15:31:28: #1 user defined the maximum tags... INFO @ Mon, 02 Oct 2017 15:31:28: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 02 Oct 2017 15:31:28: #1 tags after filtering in treatment: 6713303 INFO @ Mon, 02 Oct 2017 15:31:28: #1 Redundant rate of treatment: 0.71 INFO @ Mon, 02 Oct 2017 15:31:28: #1 finished! INFO @ Mon, 02 Oct 2017 15:31:28: #2 Build Peak Model... INFO @ Mon, 02 Oct 2017 15:31:29: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 02 Oct 2017 15:31:29: #2 number of paired peaks: 0 WARNING @ Mon, 02 Oct 2017 15:31:29: 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 @ Mon, 02 Oct 2017 15:31:29: Process for pairing-model is terminated! cat: SRX2704972.10_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 `SRX2704972.10_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 `SRX2704972.10_*.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 `SRX2704972.10_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 @ Mon, 02 Oct 2017 15:31:31: 57000000 INFO @ Mon, 02 Oct 2017 15:31:32: 56000000 INFO @ Mon, 02 Oct 2017 15:31:35: 58000000 INFO @ Mon, 02 Oct 2017 15:31:36: 57000000 BigWig に変換しました。 INFO @ Mon, 02 Oct 2017 15:31:39: #1 tag size is determined as 25 bps INFO @ Mon, 02 Oct 2017 15:31:39: #1 tag size = 25 INFO @ Mon, 02 Oct 2017 15:31:39: #1 total tags in treatment: 22934786 INFO @ Mon, 02 Oct 2017 15:31:39: #1 user defined the maximum tags... INFO @ Mon, 02 Oct 2017 15:31:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 02 Oct 2017 15:31:40: #1 tags after filtering in treatment: 6713303 INFO @ Mon, 02 Oct 2017 15:31:40: #1 Redundant rate of treatment: 0.71 INFO @ Mon, 02 Oct 2017 15:31:40: #1 finished! INFO @ Mon, 02 Oct 2017 15:31:40: #2 Build Peak Model... INFO @ Mon, 02 Oct 2017 15:31:40: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 02 Oct 2017 15:31:40: #2 number of paired peaks: 0 WARNING @ Mon, 02 Oct 2017 15:31:40: 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 @ Mon, 02 Oct 2017 15:31:40: Process for pairing-model is terminated! cat: SRX2704972.20_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): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2704972.20_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 `SRX2704972.20_*.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 `SRX2704972.20_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 @ Mon, 02 Oct 2017 15:31:41: 58000000 INFO @ Mon, 02 Oct 2017 15:31:45: #1 tag size is determined as 25 bps INFO @ Mon, 02 Oct 2017 15:31:45: #1 tag size = 25 INFO @ Mon, 02 Oct 2017 15:31:45: #1 total tags in treatment: 22934786 INFO @ Mon, 02 Oct 2017 15:31:45: #1 user defined the maximum tags... INFO @ Mon, 02 Oct 2017 15:31:45: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Mon, 02 Oct 2017 15:31:45: #1 tags after filtering in treatment: 6713303 INFO @ Mon, 02 Oct 2017 15:31:45: #1 Redundant rate of treatment: 0.71 INFO @ Mon, 02 Oct 2017 15:31:45: #1 finished! INFO @ Mon, 02 Oct 2017 15:31:45: #2 Build Peak Model... INFO @ Mon, 02 Oct 2017 15:31:45: #2 looking for paired plus/minus strand peaks... INFO @ Mon, 02 Oct 2017 15:31:46: #2 number of paired peaks: 0 WARNING @ Mon, 02 Oct 2017 15:31:46: 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 @ Mon, 02 Oct 2017 15:31:46: Process for pairing-model is terminated! cat: SRX2704972.05_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 `SRX2704972.05_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 `SRX2704972.05_*.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 `SRX2704972.05_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