Job ID = 10536517 sra ファイルのダウンロード中... Completed: 1307842K bytes transferred in 31 seconds (343650K 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 33592076 spots for /home/okishinya/chipatlas/results/sacCer3/SRX3671210/SRR6696962.sra Written 33592076 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: 00:22:02 33592076 reads; of these: 33592076 (100.00%) were paired; of these: 7400900 (22.03%) aligned concordantly 0 times 22570429 (67.19%) aligned concordantly exactly 1 time 3620747 (10.78%) aligned concordantly >1 times ---- 7400900 pairs aligned concordantly 0 times; of these: 285610 (3.86%) aligned discordantly 1 time ---- 7115290 pairs aligned 0 times concordantly or discordantly; of these: 14230580 mates make up the pairs; of these: 13932549 (97.91%) aligned 0 times 121067 (0.85%) aligned exactly 1 time 176964 (1.24%) aligned >1 times 79.26% overall alignment rate Time searching: 00:22:02 Overall time: 00:22:02 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] 6862936 / 26395860 = 0.2600 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 10:35:01: # Command line: callpeak -t SRX3671210.bam -f BAM -g 12100000 -n SRX3671210.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX3671210.20 # format = BAM # ChIP-seq file = ['SRX3671210.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 10:35:01: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:35:01: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:35:01: # Command line: callpeak -t SRX3671210.bam -f BAM -g 12100000 -n SRX3671210.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX3671210.10 # format = BAM # ChIP-seq file = ['SRX3671210.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 10:35:01: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:35:01: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:35:01: # Command line: callpeak -t SRX3671210.bam -f BAM -g 12100000 -n SRX3671210.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX3671210.05 # format = BAM # ChIP-seq file = ['SRX3671210.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 10:35:01: #1 read tag files... INFO @ Thu, 05 Apr 2018 10:35:01: #1 read treatment tags... INFO @ Thu, 05 Apr 2018 10:35:08: 1000000 INFO @ Thu, 05 Apr 2018 10:35:08: 1000000 INFO @ Thu, 05 Apr 2018 10:35:09: 1000000 INFO @ Thu, 05 Apr 2018 10:35:14: 2000000 INFO @ Thu, 05 Apr 2018 10:35:14: 2000000 INFO @ Thu, 05 Apr 2018 10:35:15: 2000000 INFO @ Thu, 05 Apr 2018 10:35:20: 3000000 INFO @ Thu, 05 Apr 2018 10:35:20: 3000000 INFO @ Thu, 05 Apr 2018 10:35:21: 3000000 INFO @ Thu, 05 Apr 2018 10:35:26: 4000000 INFO @ Thu, 05 Apr 2018 10:35:27: 4000000 INFO @ Thu, 05 Apr 2018 10:35:27: 4000000 INFO @ Thu, 05 Apr 2018 10:35:33: 5000000 INFO @ Thu, 05 Apr 2018 10:35:33: 5000000 INFO @ Thu, 05 Apr 2018 10:35:33: 5000000 INFO @ Thu, 05 Apr 2018 10:35:39: 6000000 INFO @ Thu, 05 Apr 2018 10:35:41: 6000000 INFO @ Thu, 05 Apr 2018 10:35:43: 6000000 INFO @ Thu, 05 Apr 2018 10:35:48: 7000000 INFO @ Thu, 05 Apr 2018 10:35:49: 7000000 INFO @ Thu, 05 Apr 2018 10:35:52: 7000000 INFO @ Thu, 05 Apr 2018 10:35:56: 8000000 INFO @ Thu, 05 Apr 2018 10:35:57: 8000000 INFO @ Thu, 05 Apr 2018 10:35:59: 8000000 INFO @ Thu, 05 Apr 2018 10:36:02: 9000000 INFO @ Thu, 05 Apr 2018 10:36:03: 9000000 INFO @ Thu, 05 Apr 2018 10:36:05: 9000000 INFO @ Thu, 05 Apr 2018 10:36:09: 10000000 INFO @ Thu, 05 Apr 2018 10:36:09: 10000000 INFO @ Thu, 05 Apr 2018 10:36:12: 10000000 INFO @ Thu, 05 Apr 2018 10:36:15: 11000000 INFO @ Thu, 05 Apr 2018 10:36:15: 11000000 INFO @ Thu, 05 Apr 2018 10:36:18: 11000000 INFO @ Thu, 05 Apr 2018 10:36:21: 12000000 INFO @ Thu, 05 Apr 2018 10:36:22: 12000000 INFO @ Thu, 05 Apr 2018 10:36:25: 12000000 INFO @ Thu, 05 Apr 2018 10:36:28: 13000000 INFO @ Thu, 05 Apr 2018 10:36:28: 13000000 INFO @ Thu, 05 Apr 2018 10:36:31: 13000000 INFO @ Thu, 05 Apr 2018 10:36:33: 14000000 INFO @ Thu, 05 Apr 2018 10:36:35: 14000000 INFO @ Thu, 05 Apr 2018 10:36:38: 14000000 INFO @ Thu, 05 Apr 2018 10:36:40: 15000000 INFO @ Thu, 05 Apr 2018 10:36:42: 15000000 INFO @ Thu, 05 Apr 2018 10:36:44: 15000000 INFO @ Thu, 05 Apr 2018 10:36:45: 16000000 INFO @ Thu, 05 Apr 2018 10:36:48: 16000000 INFO @ Thu, 05 Apr 2018 10:36:50: 16000000 INFO @ Thu, 05 Apr 2018 10:36:51: 17000000 INFO @ Thu, 05 Apr 2018 10:36:55: 17000000 INFO @ Thu, 05 Apr 2018 10:36:59: 17000000 INFO @ Thu, 05 Apr 2018 10:37:00: 18000000 INFO @ Thu, 05 Apr 2018 10:37:02: 18000000 INFO @ Thu, 05 Apr 2018 10:37:06: 18000000 INFO @ Thu, 05 Apr 2018 10:37:06: 19000000 INFO @ Thu, 05 Apr 2018 10:37:09: 19000000 INFO @ Thu, 05 Apr 2018 10:37:13: 19000000 INFO @ Thu, 05 Apr 2018 10:37:16: 20000000 INFO @ Thu, 05 Apr 2018 10:37:17: 20000000 INFO @ Thu, 05 Apr 2018 10:37:20: 20000000 INFO @ Thu, 05 Apr 2018 10:37:22: 21000000 INFO @ Thu, 05 Apr 2018 10:37:23: 21000000 INFO @ Thu, 05 Apr 2018 10:37:28: 21000000 INFO @ Thu, 05 Apr 2018 10:37:31: 22000000 INFO @ Thu, 05 Apr 2018 10:37:33: 22000000 INFO @ Thu, 05 Apr 2018 10:37:37: 22000000 INFO @ Thu, 05 Apr 2018 10:37:41: 23000000 INFO @ Thu, 05 Apr 2018 10:37:42: 23000000 INFO @ Thu, 05 Apr 2018 10:37:46: 23000000 INFO @ Thu, 05 Apr 2018 10:37:49: 24000000 INFO @ Thu, 05 Apr 2018 10:37:50: 24000000 INFO @ Thu, 05 Apr 2018 10:37:52: 24000000 INFO @ Thu, 05 Apr 2018 10:37:54: 25000000 INFO @ Thu, 05 Apr 2018 10:37:56: 25000000 INFO @ Thu, 05 Apr 2018 10:37:59: 25000000 INFO @ Thu, 05 Apr 2018 10:38:00: 26000000 INFO @ Thu, 05 Apr 2018 10:38:03: 26000000 INFO @ Thu, 05 Apr 2018 10:38:05: 26000000 INFO @ Thu, 05 Apr 2018 10:38:06: 27000000 INFO @ Thu, 05 Apr 2018 10:38:11: 27000000 INFO @ Thu, 05 Apr 2018 10:38:14: 27000000 INFO @ Thu, 05 Apr 2018 10:38:14: 28000000 INFO @ Thu, 05 Apr 2018 10:38:18: 28000000 INFO @ Thu, 05 Apr 2018 10:38:20: 29000000 INFO @ Thu, 05 Apr 2018 10:38:20: 28000000 INFO @ Thu, 05 Apr 2018 10:38:26: 29000000 INFO @ Thu, 05 Apr 2018 10:38:27: 30000000 INFO @ Thu, 05 Apr 2018 10:38:28: 29000000 INFO @ Thu, 05 Apr 2018 10:38:33: 30000000 INFO @ Thu, 05 Apr 2018 10:38:34: 31000000 INFO @ Thu, 05 Apr 2018 10:38:34: 30000000 INFO @ Thu, 05 Apr 2018 10:38:39: 31000000 INFO @ Thu, 05 Apr 2018 10:38:40: 32000000 INFO @ Thu, 05 Apr 2018 10:38:41: 31000000 INFO @ Thu, 05 Apr 2018 10:38:45: 32000000 INFO @ Thu, 05 Apr 2018 10:38:46: 33000000 INFO @ Thu, 05 Apr 2018 10:38:47: 32000000 INFO @ Thu, 05 Apr 2018 10:38:51: 33000000 INFO @ Thu, 05 Apr 2018 10:38:52: 34000000 INFO @ Thu, 05 Apr 2018 10:38:53: 33000000 INFO @ Thu, 05 Apr 2018 10:38:58: 34000000 INFO @ Thu, 05 Apr 2018 10:38:58: 35000000 INFO @ Thu, 05 Apr 2018 10:38:59: 34000000 INFO @ Thu, 05 Apr 2018 10:39:04: 35000000 INFO @ Thu, 05 Apr 2018 10:39:04: 36000000 INFO @ Thu, 05 Apr 2018 10:39:05: 35000000 INFO @ Thu, 05 Apr 2018 10:39:10: 36000000 INFO @ Thu, 05 Apr 2018 10:39:11: 37000000 INFO @ Thu, 05 Apr 2018 10:39:13: 36000000 INFO @ Thu, 05 Apr 2018 10:39:17: 37000000 INFO @ Thu, 05 Apr 2018 10:39:17: 38000000 INFO @ Thu, 05 Apr 2018 10:39:19: 37000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Thu, 05 Apr 2018 10:39:23: 38000000 INFO @ Thu, 05 Apr 2018 10:39:23: 39000000 INFO @ Thu, 05 Apr 2018 10:39:25: 38000000 INFO @ Thu, 05 Apr 2018 10:39:27: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:39:27: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:39:27: #1 total tags in treatment: 19407622 INFO @ Thu, 05 Apr 2018 10:39:27: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:39:27: #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 10:39:27: #1 tags after filtering in treatment: 7165153 INFO @ Thu, 05 Apr 2018 10:39:27: #1 Redundant rate of treatment: 0.63 INFO @ Thu, 05 Apr 2018 10:39:27: #1 finished! INFO @ Thu, 05 Apr 2018 10:39:27: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:39:27: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:39:28: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:39:28: 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 10:39:28: Process for pairing-model is terminated! cat: SRX3671210.20_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 `SRX3671210.20_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 `SRX3671210.20_*.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 `SRX3671210.20_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, 05 Apr 2018 10:39:30: 39000000 INFO @ Thu, 05 Apr 2018 10:39:31: 39000000 INFO @ Thu, 05 Apr 2018 10:39:33: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:39:33: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:39:33: #1 total tags in treatment: 19407622 INFO @ Thu, 05 Apr 2018 10:39:33: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:39:33: #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 10:39:33: #1 tags after filtering in treatment: 7165153 INFO @ Thu, 05 Apr 2018 10:39:33: #1 Redundant rate of treatment: 0.63 INFO @ Thu, 05 Apr 2018 10:39:33: #1 finished! INFO @ Thu, 05 Apr 2018 10:39:33: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:39:33: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:39:34: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:39:34: 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 @ Thu, 05 Apr 2018 10:39:34: Process for pairing-model is terminated! cat: SRX3671210.05_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 `SRX3671210.05_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 `SRX3671210.05_*.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 `SRX3671210.05_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 10:39:34: #1 tag size is determined as 50 bps INFO @ Thu, 05 Apr 2018 10:39:34: #1 tag size = 50 INFO @ Thu, 05 Apr 2018 10:39:34: #1 total tags in treatment: 19407622 INFO @ Thu, 05 Apr 2018 10:39:34: #1 user defined the maximum tags... INFO @ Thu, 05 Apr 2018 10:39:34: #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 10:39:35: #1 tags after filtering in treatment: 7165153 INFO @ Thu, 05 Apr 2018 10:39:35: #1 Redundant rate of treatment: 0.63 INFO @ Thu, 05 Apr 2018 10:39:35: #1 finished! INFO @ Thu, 05 Apr 2018 10:39:35: #2 Build Peak Model... INFO @ Thu, 05 Apr 2018 10:39:35: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 05 Apr 2018 10:39:35: #2 number of paired peaks: 0 WARNING @ Thu, 05 Apr 2018 10:39:35: 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 @ Thu, 05 Apr 2018 10:39:35: Process for pairing-model is terminated! cat: SRX3671210.10_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 `SRX3671210.10_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 `SRX3671210.10_*.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 `SRX3671210.10_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 BigWig に変換しました。