Job ID = 10536371 sra ファイルのダウンロード中... Completed: 1519884K bytes transferred in 100 seconds (123744K 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 38751292 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3433232/SRR6333873.sra Written 38751292 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: 00:38:21 38751292 reads; of these: 38751292 (100.00%) were paired; of these: 3228857 (8.33%) aligned concordantly 0 times 28203008 (72.78%) aligned concordantly exactly 1 time 7319427 (18.89%) aligned concordantly >1 times ---- 3228857 pairs aligned concordantly 0 times; of these: 94693 (2.93%) aligned discordantly 1 time ---- 3134164 pairs aligned 0 times concordantly or discordantly; of these: 6268328 mates make up the pairs; of these: 5619195 (89.64%) aligned 0 times 408892 (6.52%) aligned exactly 1 time 240241 (3.83%) aligned >1 times 92.75% overall alignment rate Time searching: 00:38:21 Overall time: 00:38:21 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] 10563282 / 35572816 = 0.2969 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, 05 Apr 2018 10:00:24: # Command line: callpeak -t SRX3433232.bam -f BAM -g 12100000 -n SRX3433232.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3433232.20 # format = BAM # ChIP-seq file = ['SRX3433232.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, 05 Apr 2018 10:00:24: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:00:24: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:00:24: # Command line: callpeak -t SRX3433232.bam -f BAM -g 12100000 -n SRX3433232.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3433232.05 # format = BAM # ChIP-seq file = ['SRX3433232.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, 05 Apr 2018 10:00:24: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:00:24: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:00:24: # Command line: callpeak -t SRX3433232.bam -f BAM -g 12100000 -n SRX3433232.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3433232.10 # format = BAM # ChIP-seq file = ['SRX3433232.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, 05 Apr 2018 10:00:24: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:00:24: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:00:31: 1000000 INFO @ Thu, 05 Apr 2018 10:00:31: 1000000 INFO @ Thu, 05 Apr 2018 10:00:31: 1000000 INFO @ Thu, 05 Apr 2018 10:00:37: 2000000 INFO @ Thu, 05 Apr 2018 10:00:37: 2000000 INFO @ Thu, 05 Apr 2018 10:00:38: 2000000 INFO @ Thu, 05 Apr 2018 10:00:43: 3000000 INFO @ Thu, 05 Apr 2018 10:00:43: 3000000 INFO @ Thu, 05 Apr 2018 10:00:45: 3000000 INFO @ Thu, 05 Apr 2018 10:00:50: 4000000 INFO @ Thu, 05 Apr 2018 10:00:50: 4000000 INFO @ Thu, 05 Apr 2018 10:00:52: 4000000 INFO @ Thu, 05 Apr 2018 10:00:56: 5000000 INFO @ Thu, 05 Apr 2018 10:00:56: 5000000 INFO @ Thu, 05 Apr 2018 10:00:59: 5000000 INFO @ Thu, 05 Apr 2018 10:01:02: 6000000 INFO @ Thu, 05 Apr 2018 10:01:02: 6000000 INFO @ Thu, 05 Apr 2018 10:01:06: 6000000 INFO @ Thu, 05 Apr 2018 10:01:08: 7000000 INFO @ Thu, 05 Apr 2018 10:01:08: 7000000 INFO @ Thu, 05 Apr 2018 10:01:13: 7000000 INFO @ Thu, 05 Apr 2018 10:01:14: 8000000 INFO @ Thu, 05 Apr 2018 10:01:14: 8000000 INFO @ Thu, 05 Apr 2018 10:01:19: 8000000 INFO @ Thu, 05 Apr 2018 10:01:21: 9000000 INFO @ Thu, 05 Apr 2018 10:01:21: 9000000 INFO @ Thu, 05 Apr 2018 10:01:25: 9000000 INFO @ Thu, 05 Apr 2018 10:01:28: 10000000 INFO @ Thu, 05 Apr 2018 10:01:28: 10000000 INFO @ Thu, 05 Apr 2018 10:01:32: 10000000 INFO @ Thu, 05 Apr 2018 10:01:35: 11000000 INFO @ Thu, 05 Apr 2018 10:01:35: 11000000 INFO @ Thu, 05 Apr 2018 10:01:38: 11000000 INFO @ Thu, 05 Apr 2018 10:01:41: 12000000 INFO @ Thu, 05 Apr 2018 10:01:41: 12000000 INFO @ Thu, 05 Apr 2018 10:01:44: 12000000 INFO @ Thu, 05 Apr 2018 10:01:48: 13000000 INFO @ Thu, 05 Apr 2018 10:01:48: 13000000 INFO @ Thu, 05 Apr 2018 10:01:50: 13000000 INFO @ Thu, 05 Apr 2018 10:01:55: 14000000 INFO @ Thu, 05 Apr 2018 10:01:55: 14000000 INFO @ Thu, 05 Apr 2018 10:01:57: 14000000 INFO @ Thu, 05 Apr 2018 10:02:01: 15000000 INFO @ Thu, 05 Apr 2018 10:02:01: 15000000 INFO @ Thu, 05 Apr 2018 10:02:03: 15000000 INFO @ Thu, 05 Apr 2018 10:02:08: 16000000 INFO @ Thu, 05 Apr 2018 10:02:08: 16000000 INFO @ Thu, 05 Apr 2018 10:02:09: 16000000 INFO @ Thu, 05 Apr 2018 10:02:15: 17000000 INFO @ Thu, 05 Apr 2018 10:02:15: 17000000 INFO @ Thu, 05 Apr 2018 10:02:15: 17000000 INFO @ Thu, 05 Apr 2018 10:02:21: 18000000 INFO @ Thu, 05 Apr 2018 10:02:21: 18000000 INFO @ Thu, 05 Apr 2018 10:02:21: 18000000 INFO @ Thu, 05 Apr 2018 10:02:28: 19000000 INFO @ Thu, 05 Apr 2018 10:02:28: 19000000 INFO @ Thu, 05 Apr 2018 10:02:28: 19000000 INFO @ Thu, 05 Apr 2018 10:02:34: 20000000 INFO @ Thu, 05 Apr 2018 10:02:35: 20000000 INFO @ Thu, 05 Apr 2018 10:02:35: 20000000 INFO @ Thu, 05 Apr 2018 10:02:40: 21000000 INFO @ Thu, 05 Apr 2018 10:02:42: 21000000 INFO @ Thu, 05 Apr 2018 10:02:42: 21000000 INFO @ Thu, 05 Apr 2018 10:02:46: 22000000 INFO @ Thu, 05 Apr 2018 10:02:49: 22000000 INFO @ Thu, 05 Apr 2018 10:02:49: 22000000 INFO @ Thu, 05 Apr 2018 10:02:53: 23000000 INFO @ Thu, 05 Apr 2018 10:02:56: 23000000 INFO @ Thu, 05 Apr 2018 10:02:56: 23000000 INFO @ Thu, 05 Apr 2018 10:03:00: 24000000 INFO @ Thu, 05 Apr 2018 10:03:03: 24000000 INFO @ Thu, 05 Apr 2018 10:03:03: 24000000 INFO @ Thu, 05 Apr 2018 10:03:07: 25000000 INFO @ Thu, 05 Apr 2018 10:03:09: 25000000 INFO @ Thu, 05 Apr 2018 10:03:09: 25000000 INFO @ Thu, 05 Apr 2018 10:03:14: 26000000 INFO @ Thu, 05 Apr 2018 10:03:15: 26000000 INFO @ Thu, 05 Apr 2018 10:03:15: 26000000 INFO @ Thu, 05 Apr 2018 10:03:20: 27000000 INFO @ Thu, 05 Apr 2018 10:03:21: 27000000 INFO @ Thu, 05 Apr 2018 10:03:22: 27000000 INFO @ Thu, 05 Apr 2018 10:03:28: 28000000 INFO @ Thu, 05 Apr 2018 10:03:28: 28000000 INFO @ Thu, 05 Apr 2018 10:03:28: 28000000 INFO @ Thu, 05 Apr 2018 10:03:34: 29000000 INFO @ Thu, 05 Apr 2018 10:03:34: 29000000 INFO @ Thu, 05 Apr 2018 10:03:34: 29000000 INFO @ Thu, 05 Apr 2018 10:03:40: 30000000 INFO @ Thu, 05 Apr 2018 10:03:41: 30000000 INFO @ Thu, 05 Apr 2018 10:03:41: 30000000 INFO @ Thu, 05 Apr 2018 10:03:47: 31000000 INFO @ Thu, 05 Apr 2018 10:03:47: 31000000 INFO @ Thu, 05 Apr 2018 10:03:47: 31000000 INFO @ Thu, 05 Apr 2018 10:03:53: 32000000 INFO @ Thu, 05 Apr 2018 10:03:53: 32000000 INFO @ Thu, 05 Apr 2018 10:03:53: 32000000 INFO @ Thu, 05 Apr 2018 10:03:59: 33000000 INFO @ Thu, 05 Apr 2018 10:03:59: 33000000 INFO @ Thu, 05 Apr 2018 10:04:00: 33000000 INFO @ Thu, 05 Apr 2018 10:04:05: 34000000 INFO @ Thu, 05 Apr 2018 10:04:05: 34000000 INFO @ Thu, 05 Apr 2018 10:04:06: 34000000 INFO @ Thu, 05 Apr 2018 10:04:11: 35000000 INFO @ Thu, 05 Apr 2018 10:04:11: 35000000 INFO @ Thu, 05 Apr 2018 10:04:13: 35000000 INFO @ Thu, 05 Apr 2018 10:04:17: 36000000 INFO @ Thu, 05 Apr 2018 10:04:17: 36000000 INFO @ Thu, 05 Apr 2018 10:04:19: 36000000 INFO @ Thu, 05 Apr 2018 10:04:23: 37000000 INFO @ Thu, 05 Apr 2018 10:04:23: 37000000 INFO @ Thu, 05 Apr 2018 10:04:26: 37000000 INFO @ Thu, 05 Apr 2018 10:04:29: 38000000 INFO @ Thu, 05 Apr 2018 10:04:29: 38000000 INFO @ Thu, 05 Apr 2018 10:04:32: 38000000 INFO @ Thu, 05 Apr 2018 10:04:35: 39000000 INFO @ Thu, 05 Apr 2018 10:04:35: 39000000 INFO @ Thu, 05 Apr 2018 10:04:39: 39000000 INFO @ Thu, 05 Apr 2018 10:04:41: 40000000 INFO @ Thu, 05 Apr 2018 10:04:42: 40000000 INFO @ Thu, 05 Apr 2018 10:04:45: 40000000 INFO @ Thu, 05 Apr 2018 10:04:48: 41000000 INFO @ Thu, 05 Apr 2018 10:04:48: 41000000 INFO @ Thu, 05 Apr 2018 10:04:52: 41000000 INFO @ Thu, 05 Apr 2018 10:04:54: 42000000 INFO @ Thu, 05 Apr 2018 10:04:54: 42000000 INFO @ Thu, 05 Apr 2018 10:04:59: 42000000 INFO @ Thu, 05 Apr 2018 10:05:00: 43000000 INFO @ Thu, 05 Apr 2018 10:05:00: 43000000 INFO @ Thu, 05 Apr 2018 10:05:05: 43000000 INFO @ Thu, 05 Apr 2018 10:05:06: 44000000 INFO @ Thu, 05 Apr 2018 10:05:06: 44000000 INFO @ Thu, 05 Apr 2018 10:05:12: 44000000 INFO @ Thu, 05 Apr 2018 10:05:12: 45000000 INFO @ Thu, 05 Apr 2018 10:05:12: 45000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 05 Apr 2018 10:05:18: 46000000 INFO @ Thu, 05 Apr 2018 10:05:18: 46000000 INFO @ Thu, 05 Apr 2018 10:05:18: 45000000 INFO @ Thu, 05 Apr 2018 10:05:24: 47000000 INFO @ Thu, 05 Apr 2018 10:05:24: 47000000 INFO @ Thu, 05 Apr 2018 10:05:25: 46000000 INFO @ Thu, 05 Apr 2018 10:05:31: 48000000 INFO @ Thu, 05 Apr 2018 10:05:31: 48000000 INFO @ Thu, 05 Apr 2018 10:05:31: 47000000 INFO @ Thu, 05 Apr 2018 10:05:37: 49000000 INFO @ Thu, 05 Apr 2018 10:05:37: 49000000 BigWig に変換しました。 INFO @ Thu, 05 Apr 2018 10:05:38: 48000000 INFO @ Thu, 05 Apr 2018 10:05:43: 50000000 INFO @ Thu, 05 Apr 2018 10:05:43: 50000000 INFO @ Thu, 05 Apr 2018 10:05:45: 49000000 INFO @ Thu, 05 Apr 2018 10:05:48: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:05:48: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:05:48: #1 total tags in treatment: 24971432 INFO @ Thu, 05 Apr 2018 10:05:48: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:05:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:05:48: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:05:48: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:05:48: #1 total tags in treatment: 24971432 INFO @ Thu, 05 Apr 2018 10:05:48: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:05:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:05:49: #1 tags after filtering in treatment: 12099663 INFO @ Thu, 05 Apr 2018 10:05:49: #1 Redundant rate of treatment: 0.52 INFO @ Thu, 05 Apr 2018 10:05:49: #1 finished! INFO @ Thu, 05 Apr 2018 10:05:49: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:05:49: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:05:49: #1 tags after filtering in treatment: 12099663 INFO @ Thu, 05 Apr 2018 10:05:49: #1 Redundant rate of treatment: 0.52 INFO @ Thu, 05 Apr 2018 10:05:49: #1 finished! INFO @ Thu, 05 Apr 2018 10:05:49: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:05:49: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:05:49: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:05:49: 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, 05 Apr 2018 10:05:49: Process for pairing-model is terminated! cat: SRX3433232.20_peaks.narrowPeakINFO @ Thu, 05 Apr 2018 10:05:49: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:05:49: 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, 05 Apr 2018 10:05:49: Process for pairing-model is terminated! : 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 `SRX3433232.20_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 `SRX3433232.20_*.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 `SRX3433232.20_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 cat: SRX3433232.05_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): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX3433232.05_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 `SRX3433232.05_*.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 `SRX3433232.05_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, 05 Apr 2018 10:05:51: 50000000 INFO @ Thu, 05 Apr 2018 10:05:56: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:05:56: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:05:56: #1 total tags in treatment: 24971432 INFO @ Thu, 05 Apr 2018 10:05:56: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:05:56: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 05 Apr 2018 10:05:56: #1 tags after filtering in treatment: 12099663 INFO @ Thu, 05 Apr 2018 10:05:56: #1 Redundant rate of treatment: 0.52 INFO @ Thu, 05 Apr 2018 10:05:56: #1 finished! INFO @ Thu, 05 Apr 2018 10:05:56: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:05:56: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:05:57: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:05:57: 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, 05 Apr 2018 10:05:57: Process for pairing-model is terminated! cat: SRX3433232.10_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 `SRX3433232.10_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 `SRX3433232.10_*.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 `SRX3433232.10_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