Job ID = 10608908 sra ファイルのダウンロード中... Completed: 1926027K bytes transferred in 26 seconds (585926K 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 35548438 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2469159/SRR5151069.sra Written 35548438 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: 00:37:43 35548438 reads; of these: 35548438 (100.00%) were paired; of these: 1082139 (3.04%) aligned concordantly 0 times 29345667 (82.55%) aligned concordantly exactly 1 time 5120632 (14.40%) aligned concordantly >1 times ---- 1082139 pairs aligned concordantly 0 times; of these: 89374 (8.26%) aligned discordantly 1 time ---- 992765 pairs aligned 0 times concordantly or discordantly; of these: 1985530 mates make up the pairs; of these: 1725737 (86.92%) aligned 0 times 148876 (7.50%) aligned exactly 1 time 110917 (5.59%) aligned >1 times 97.57% overall alignment rate Time searching: 00:37:43 Overall time: 00:37:43 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 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 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] 4720167 / 34527586 = 0.1367 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 23:37:57: # Command line: callpeak -t SRX2469159.bam -f BAM -g 12100000 -n SRX2469159.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2469159.20 # format = BAM # ChIP-seq file = ['SRX2469159.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 23:37:57: #1 read tag files... INFO @ Thu, 03 May 2018 23:37:57: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:37:57: # Command line: callpeak -t SRX2469159.bam -f BAM -g 12100000 -n SRX2469159.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2469159.10 # format = BAM # ChIP-seq file = ['SRX2469159.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 23:37:57: #1 read tag files... INFO @ Thu, 03 May 2018 23:37:57: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:37:57: # Command line: callpeak -t SRX2469159.bam -f BAM -g 12100000 -n SRX2469159.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2469159.05 # format = BAM # ChIP-seq file = ['SRX2469159.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 23:37:57: #1 read tag files... INFO @ Thu, 03 May 2018 23:37:57: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:38:03: 1000000 INFO @ Thu, 03 May 2018 23:38:03: 1000000 INFO @ Thu, 03 May 2018 23:38:03: 1000000 INFO @ Thu, 03 May 2018 23:38:09: 2000000 INFO @ Thu, 03 May 2018 23:38:09: 2000000 INFO @ Thu, 03 May 2018 23:38:09: 2000000 INFO @ Thu, 03 May 2018 23:38:15: 3000000 INFO @ Thu, 03 May 2018 23:38:15: 3000000 INFO @ Thu, 03 May 2018 23:38:16: 3000000 INFO @ Thu, 03 May 2018 23:38:21: 4000000 INFO @ Thu, 03 May 2018 23:38:22: 4000000 INFO @ Thu, 03 May 2018 23:38:22: 4000000 INFO @ Thu, 03 May 2018 23:38:28: 5000000 INFO @ Thu, 03 May 2018 23:38:28: 5000000 INFO @ Thu, 03 May 2018 23:38:28: 5000000 INFO @ Thu, 03 May 2018 23:38:34: 6000000 INFO @ Thu, 03 May 2018 23:38:34: 6000000 INFO @ Thu, 03 May 2018 23:38:34: 6000000 INFO @ Thu, 03 May 2018 23:38:40: 7000000 INFO @ Thu, 03 May 2018 23:38:40: 7000000 INFO @ Thu, 03 May 2018 23:38:40: 7000000 INFO @ Thu, 03 May 2018 23:38:46: 8000000 INFO @ Thu, 03 May 2018 23:38:46: 8000000 INFO @ Thu, 03 May 2018 23:38:47: 8000000 INFO @ Thu, 03 May 2018 23:38:52: 9000000 INFO @ Thu, 03 May 2018 23:38:53: 9000000 INFO @ Thu, 03 May 2018 23:38:53: 9000000 INFO @ Thu, 03 May 2018 23:38:58: 10000000 INFO @ Thu, 03 May 2018 23:38:59: 10000000 INFO @ Thu, 03 May 2018 23:38:59: 10000000 INFO @ Thu, 03 May 2018 23:39:05: 11000000 INFO @ Thu, 03 May 2018 23:39:05: 11000000 INFO @ Thu, 03 May 2018 23:39:05: 11000000 INFO @ Thu, 03 May 2018 23:39:11: 12000000 INFO @ Thu, 03 May 2018 23:39:11: 12000000 INFO @ Thu, 03 May 2018 23:39:11: 12000000 INFO @ Thu, 03 May 2018 23:39:17: 13000000 INFO @ Thu, 03 May 2018 23:39:18: 13000000 INFO @ Thu, 03 May 2018 23:39:18: 13000000 INFO @ Thu, 03 May 2018 23:39:23: 14000000 INFO @ Thu, 03 May 2018 23:39:24: 14000000 INFO @ Thu, 03 May 2018 23:39:24: 14000000 INFO @ Thu, 03 May 2018 23:39:29: 15000000 INFO @ Thu, 03 May 2018 23:39:30: 15000000 INFO @ Thu, 03 May 2018 23:39:30: 15000000 INFO @ Thu, 03 May 2018 23:39:35: 16000000 INFO @ Thu, 03 May 2018 23:39:36: 16000000 INFO @ Thu, 03 May 2018 23:39:36: 16000000 INFO @ Thu, 03 May 2018 23:39:41: 17000000 INFO @ Thu, 03 May 2018 23:39:42: 17000000 INFO @ Thu, 03 May 2018 23:39:43: 17000000 INFO @ Thu, 03 May 2018 23:39:47: 18000000 INFO @ Thu, 03 May 2018 23:39:48: 18000000 INFO @ Thu, 03 May 2018 23:39:49: 18000000 INFO @ Thu, 03 May 2018 23:39:53: 19000000 INFO @ Thu, 03 May 2018 23:39:55: 19000000 INFO @ Thu, 03 May 2018 23:39:55: 19000000 INFO @ Thu, 03 May 2018 23:39:59: 20000000 INFO @ Thu, 03 May 2018 23:40:01: 20000000 INFO @ Thu, 03 May 2018 23:40:02: 20000000 INFO @ Thu, 03 May 2018 23:40:05: 21000000 INFO @ Thu, 03 May 2018 23:40:07: 21000000 INFO @ Thu, 03 May 2018 23:40:08: 21000000 INFO @ Thu, 03 May 2018 23:40:11: 22000000 INFO @ Thu, 03 May 2018 23:40:13: 22000000 INFO @ Thu, 03 May 2018 23:40:14: 22000000 INFO @ Thu, 03 May 2018 23:40:18: 23000000 INFO @ Thu, 03 May 2018 23:40:19: 23000000 INFO @ Thu, 03 May 2018 23:40:21: 23000000 INFO @ Thu, 03 May 2018 23:40:23: 24000000 INFO @ Thu, 03 May 2018 23:40:26: 24000000 INFO @ Thu, 03 May 2018 23:40:27: 24000000 INFO @ Thu, 03 May 2018 23:40:29: 25000000 INFO @ Thu, 03 May 2018 23:40:32: 25000000 INFO @ Thu, 03 May 2018 23:40:34: 25000000 INFO @ Thu, 03 May 2018 23:40:35: 26000000 INFO @ Thu, 03 May 2018 23:40:38: 26000000 INFO @ Thu, 03 May 2018 23:40:40: 26000000 INFO @ Thu, 03 May 2018 23:40:41: 27000000 INFO @ Thu, 03 May 2018 23:40:45: 27000000 INFO @ Thu, 03 May 2018 23:40:47: 27000000 INFO @ Thu, 03 May 2018 23:40:47: 28000000 INFO @ Thu, 03 May 2018 23:40:52: 28000000 INFO @ Thu, 03 May 2018 23:40:54: 28000000 INFO @ Thu, 03 May 2018 23:40:54: 29000000 INFO @ Thu, 03 May 2018 23:40:58: 29000000 INFO @ Thu, 03 May 2018 23:41:00: 30000000 INFO @ Thu, 03 May 2018 23:41:00: 29000000 INFO @ Thu, 03 May 2018 23:41:05: 30000000 INFO @ Thu, 03 May 2018 23:41:06: 31000000 INFO @ Thu, 03 May 2018 23:41:07: 30000000 INFO @ Thu, 03 May 2018 23:41:11: 31000000 INFO @ Thu, 03 May 2018 23:41:13: 32000000 INFO @ Thu, 03 May 2018 23:41:14: 31000000 INFO @ Thu, 03 May 2018 23:41:18: 32000000 INFO @ Thu, 03 May 2018 23:41:19: 33000000 INFO @ Thu, 03 May 2018 23:41:21: 32000000 INFO @ Thu, 03 May 2018 23:41:25: 33000000 INFO @ Thu, 03 May 2018 23:41:25: 34000000 INFO @ Thu, 03 May 2018 23:41:28: 33000000 INFO @ Thu, 03 May 2018 23:41:31: 34000000 INFO @ Thu, 03 May 2018 23:41:31: 35000000 INFO @ Thu, 03 May 2018 23:41:34: 34000000 INFO @ Thu, 03 May 2018 23:41:37: 35000000 INFO @ Thu, 03 May 2018 23:41:37: 36000000 INFO @ Thu, 03 May 2018 23:41:40: 35000000 INFO @ Thu, 03 May 2018 23:41:43: 37000000 INFO @ Thu, 03 May 2018 23:41:44: 36000000 INFO @ Thu, 03 May 2018 23:41:46: 36000000 INFO @ Thu, 03 May 2018 23:41:49: 38000000 INFO @ Thu, 03 May 2018 23:41:50: 37000000 INFO @ Thu, 03 May 2018 23:41:52: 37000000 INFO @ Thu, 03 May 2018 23:41:55: 39000000 INFO @ Thu, 03 May 2018 23:41:56: 38000000 INFO @ Thu, 03 May 2018 23:41:58: 38000000 INFO @ Thu, 03 May 2018 23:42:01: 40000000 INFO @ Thu, 03 May 2018 23:42:02: 39000000 INFO @ Thu, 03 May 2018 23:42:04: 39000000 INFO @ Thu, 03 May 2018 23:42:08: 41000000 INFO @ Thu, 03 May 2018 23:42:09: 40000000 INFO @ Thu, 03 May 2018 23:42:10: 40000000 INFO @ Thu, 03 May 2018 23:42:14: 42000000 INFO @ Thu, 03 May 2018 23:42:15: 41000000 INFO @ Thu, 03 May 2018 23:42:16: 41000000 INFO @ Thu, 03 May 2018 23:42:20: 43000000 INFO @ Thu, 03 May 2018 23:42:21: 42000000 INFO @ Thu, 03 May 2018 23:42:22: 42000000 INFO @ Thu, 03 May 2018 23:42:26: 44000000 INFO @ Thu, 03 May 2018 23:42:27: 43000000 INFO @ Thu, 03 May 2018 23:42:28: 43000000 INFO @ Thu, 03 May 2018 23:42:32: 45000000 INFO @ Thu, 03 May 2018 23:42:34: 44000000 INFO @ Thu, 03 May 2018 23:42:34: 44000000 INFO @ Thu, 03 May 2018 23:42:38: 46000000 INFO @ Thu, 03 May 2018 23:42:40: 45000000 INFO @ Thu, 03 May 2018 23:42:40: 45000000 INFO @ Thu, 03 May 2018 23:42:45: 47000000 INFO @ Thu, 03 May 2018 23:42:46: 46000000 INFO @ Thu, 03 May 2018 23:42:46: 46000000 INFO @ Thu, 03 May 2018 23:42:51: 48000000 INFO @ Thu, 03 May 2018 23:42:52: 47000000 INFO @ Thu, 03 May 2018 23:42:53: 47000000 INFO @ Thu, 03 May 2018 23:42:57: 49000000 INFO @ Thu, 03 May 2018 23:42:58: 48000000 INFO @ Thu, 03 May 2018 23:42:59: 48000000 INFO @ Thu, 03 May 2018 23:43:04: 50000000 INFO @ Thu, 03 May 2018 23:43:05: 49000000 INFO @ Thu, 03 May 2018 23:43:06: 49000000 INFO @ Thu, 03 May 2018 23:43:11: 51000000 INFO @ Thu, 03 May 2018 23:43:12: 50000000 INFO @ Thu, 03 May 2018 23:43:13: 50000000 INFO @ Thu, 03 May 2018 23:43:18: 52000000 INFO @ Thu, 03 May 2018 23:43:18: 51000000 INFO @ Thu, 03 May 2018 23:43:21: 51000000 INFO @ Thu, 03 May 2018 23:43:25: 52000000 INFO @ Thu, 03 May 2018 23:43:26: 53000000 INFO @ Thu, 03 May 2018 23:43:28: 52000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 03 May 2018 23:43:32: 53000000 INFO @ Thu, 03 May 2018 23:43:32: 54000000 INFO @ Thu, 03 May 2018 23:43:35: 53000000 INFO @ Thu, 03 May 2018 23:43:38: 54000000 INFO @ Thu, 03 May 2018 23:43:40: 55000000 INFO @ Thu, 03 May 2018 23:43:43: 54000000 INFO @ Thu, 03 May 2018 23:43:45: 55000000 INFO @ Thu, 03 May 2018 23:43:47: 56000000 INFO @ Thu, 03 May 2018 23:43:49: 55000000 INFO @ Thu, 03 May 2018 23:43:51: 56000000 BigWig に変換しました。 INFO @ Thu, 03 May 2018 23:43:53: 57000000 INFO @ Thu, 03 May 2018 23:43:56: 56000000 INFO @ Thu, 03 May 2018 23:43:57: 57000000 INFO @ Thu, 03 May 2018 23:44:00: 58000000 INFO @ Thu, 03 May 2018 23:44:02: 57000000 INFO @ Thu, 03 May 2018 23:44:04: 58000000 INFO @ Thu, 03 May 2018 23:44:06: 59000000 INFO @ Thu, 03 May 2018 23:44:09: 58000000 INFO @ Thu, 03 May 2018 23:44:10: 59000000 INFO @ Thu, 03 May 2018 23:44:12: #1 tag size is determined as 75 bps INFO @ Thu, 03 May 2018 23:44:12: #1 tag size = 75 INFO @ Thu, 03 May 2018 23:44:12: #1 total tags in treatment: 29749937 INFO @ Thu, 03 May 2018 23:44:12: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 23:44:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 23:44:13: #1 tags after filtering in treatment: 14466612 INFO @ Thu, 03 May 2018 23:44:13: #1 Redundant rate of treatment: 0.51 INFO @ Thu, 03 May 2018 23:44:13: #1 finished! INFO @ Thu, 03 May 2018 23:44:13: #2 Build Peak Model... INFO @ Thu, 03 May 2018 23:44:13: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 23:44:14: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 23:44:14: 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 @ Thu, 03 May 2018 23:44:14: Process for pairing-model is terminated! cat: SRX2469159.20_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 `SRX2469159.20_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 `SRX2469159.20_*.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 `SRX2469159.20_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 @ Thu, 03 May 2018 23:44:15: 59000000 INFO @ Thu, 03 May 2018 23:44:15: #1 tag size is determined as 75 bps INFO @ Thu, 03 May 2018 23:44:15: #1 tag size = 75 INFO @ Thu, 03 May 2018 23:44:15: #1 total tags in treatment: 29749937 INFO @ Thu, 03 May 2018 23:44:15: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 23:44:15: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 23:44:16: #1 tags after filtering in treatment: 14466612 INFO @ Thu, 03 May 2018 23:44:16: #1 Redundant rate of treatment: 0.51 INFO @ Thu, 03 May 2018 23:44:16: #1 finished! INFO @ Thu, 03 May 2018 23:44:16: #2 Build Peak Model... INFO @ Thu, 03 May 2018 23:44:16: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 23:44:17: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 23:44:17: 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 @ Thu, 03 May 2018 23:44:17: Process for pairing-model is terminated! cat: SRX2469159.05_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 `SRX2469159.05_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 `SRX2469159.05_*.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 `SRX2469159.05_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 INFO @ Thu, 03 May 2018 23:44:21: #1 tag size is determined as 75 bps INFO @ Thu, 03 May 2018 23:44:21: #1 tag size = 75 INFO @ Thu, 03 May 2018 23:44:21: #1 total tags in treatment: 29749937 INFO @ Thu, 03 May 2018 23:44:21: #1 user defined the maximum tags... INFO @ Thu, 03 May 2018 23:44:21: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 03 May 2018 23:44:22: #1 tags after filtering in treatment: 14466612 INFO @ Thu, 03 May 2018 23:44:22: #1 Redundant rate of treatment: 0.51 INFO @ Thu, 03 May 2018 23:44:22: #1 finished! INFO @ Thu, 03 May 2018 23:44:22: #2 Build Peak Model... INFO @ Thu, 03 May 2018 23:44:22: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 03 May 2018 23:44:22: #2 number of paired peaks: 0 WARNING @ Thu, 03 May 2018 23:44:22: 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 @ Thu, 03 May 2018 23:44:22: Process for pairing-model is terminated! cat: SRX2469159.10_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2469159.10_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 `SRX2469159.10_*.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 `SRX2469159.10_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