Job ID = 10608966 sra ファイルのダウンロード中... Completed: 3735436K bytes transferred in 406 seconds (75368K 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 30949301 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2741965/SRR5453799.sra Written 30949301 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: 00:36:24 30949301 reads; of these: 30949301 (100.00%) were paired; of these: 5430790 (17.55%) aligned concordantly 0 times 23265225 (75.17%) aligned concordantly exactly 1 time 2253286 (7.28%) aligned concordantly >1 times ---- 5430790 pairs aligned concordantly 0 times; of these: 1832671 (33.75%) aligned discordantly 1 time ---- 3598119 pairs aligned 0 times concordantly or discordantly; of these: 7196238 mates make up the pairs; of these: 5349301 (74.33%) aligned 0 times 1343934 (18.68%) aligned exactly 1 time 503003 (6.99%) aligned >1 times 91.36% overall alignment rate Time searching: 00:36:24 Overall time: 00:36:24 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] 519050 / 27182795 = 0.0191 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 23:57:45: # Command line: callpeak -t SRX2741965.bam -f BAM -g 12100000 -n SRX2741965.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2741965.20 # format = BAM # ChIP-seq file = ['SRX2741965.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 23:57:45: # Command line: callpeak -t SRX2741965.bam -f BAM -g 12100000 -n SRX2741965.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2741965.05 # format = BAM # ChIP-seq file = ['SRX2741965.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 23:57:45: # Command line: callpeak -t SRX2741965.bam -f BAM -g 12100000 -n SRX2741965.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2741965.10 # format = BAM # ChIP-seq file = ['SRX2741965.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 23:57:45: #1 read tag files... INFO @ Thu, 03 May 2018 23:57:45: #1 read tag files... INFO @ Thu, 03 May 2018 23:57:45: #1 read tag files... INFO @ Thu, 03 May 2018 23:57:45: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:57:45: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:57:45: #1 read treatment tags... INFO @ Thu, 03 May 2018 23:57:52: 1000000 INFO @ Thu, 03 May 2018 23:57:52: 1000000 INFO @ Thu, 03 May 2018 23:57:52: 1000000 INFO @ Thu, 03 May 2018 23:57:59: 2000000 INFO @ Thu, 03 May 2018 23:57:59: 2000000 INFO @ Thu, 03 May 2018 23:57:59: 2000000 INFO @ Thu, 03 May 2018 23:58:06: 3000000 INFO @ Thu, 03 May 2018 23:58:06: 3000000 INFO @ Thu, 03 May 2018 23:58:07: 3000000 INFO @ Thu, 03 May 2018 23:58:13: 4000000 INFO @ Thu, 03 May 2018 23:58:13: 4000000 INFO @ Thu, 03 May 2018 23:58:14: 4000000 INFO @ Thu, 03 May 2018 23:58:21: 5000000 INFO @ Thu, 03 May 2018 23:58:21: 5000000 INFO @ Thu, 03 May 2018 23:58:23: 5000000 INFO @ Thu, 03 May 2018 23:58:28: 6000000 INFO @ Thu, 03 May 2018 23:58:29: 6000000 INFO @ Thu, 03 May 2018 23:58:31: 6000000 INFO @ Thu, 03 May 2018 23:58:35: 7000000 INFO @ Thu, 03 May 2018 23:58:37: 7000000 INFO @ Thu, 03 May 2018 23:58:39: 7000000 INFO @ Thu, 03 May 2018 23:58:42: 8000000 INFO @ Thu, 03 May 2018 23:58:45: 8000000 INFO @ Thu, 03 May 2018 23:58:48: 8000000 INFO @ Thu, 03 May 2018 23:58:50: 9000000 INFO @ Thu, 03 May 2018 23:58:53: 9000000 INFO @ Thu, 03 May 2018 23:58:56: 9000000 INFO @ Thu, 03 May 2018 23:58:57: 10000000 INFO @ Thu, 03 May 2018 23:59:01: 10000000 INFO @ Thu, 03 May 2018 23:59:04: 10000000 INFO @ Thu, 03 May 2018 23:59:04: 11000000 INFO @ Thu, 03 May 2018 23:59:08: 11000000 INFO @ Thu, 03 May 2018 23:59:11: 12000000 INFO @ Thu, 03 May 2018 23:59:11: 11000000 INFO @ Thu, 03 May 2018 23:59:15: 12000000 INFO @ Thu, 03 May 2018 23:59:18: 13000000 INFO @ Thu, 03 May 2018 23:59:19: 12000000 INFO @ Thu, 03 May 2018 23:59:22: 13000000 INFO @ Thu, 03 May 2018 23:59:25: 14000000 INFO @ Thu, 03 May 2018 23:59:26: 13000000 INFO @ Thu, 03 May 2018 23:59:30: 14000000 INFO @ Thu, 03 May 2018 23:59:32: 15000000 INFO @ Thu, 03 May 2018 23:59:34: 14000000 INFO @ Thu, 03 May 2018 23:59:37: 15000000 INFO @ Thu, 03 May 2018 23:59:39: 16000000 INFO @ Thu, 03 May 2018 23:59:41: 15000000 INFO @ Thu, 03 May 2018 23:59:44: 16000000 INFO @ Thu, 03 May 2018 23:59:46: 17000000 INFO @ Thu, 03 May 2018 23:59:49: 16000000 INFO @ Thu, 03 May 2018 23:59:51: 17000000 INFO @ Thu, 03 May 2018 23:59:53: 18000000 INFO @ Thu, 03 May 2018 23:59:56: 17000000 INFO @ Thu, 03 May 2018 23:59:58: 18000000 INFO @ Fri, 04 May 2018 00:00:00: 19000000 INFO @ Fri, 04 May 2018 00:00:04: 18000000 INFO @ Fri, 04 May 2018 00:00:06: 19000000 INFO @ Fri, 04 May 2018 00:00:07: 20000000 INFO @ Fri, 04 May 2018 00:00:11: 19000000 INFO @ Fri, 04 May 2018 00:00:13: 20000000 INFO @ Fri, 04 May 2018 00:00:14: 21000000 INFO @ Fri, 04 May 2018 00:00:19: 20000000 INFO @ Fri, 04 May 2018 00:00:20: 21000000 INFO @ Fri, 04 May 2018 00:00:21: 22000000 INFO @ Fri, 04 May 2018 00:00:26: 21000000 INFO @ Fri, 04 May 2018 00:00:27: 22000000 INFO @ Fri, 04 May 2018 00:00:28: 23000000 INFO @ Fri, 04 May 2018 00:00:34: 22000000 INFO @ Fri, 04 May 2018 00:00:34: 23000000 INFO @ Fri, 04 May 2018 00:00:35: 24000000 INFO @ Fri, 04 May 2018 00:00:41: 23000000 INFO @ Fri, 04 May 2018 00:00:42: 24000000 INFO @ Fri, 04 May 2018 00:00:42: 25000000 INFO @ Fri, 04 May 2018 00:00:49: 24000000 INFO @ Fri, 04 May 2018 00:00:49: 25000000 INFO @ Fri, 04 May 2018 00:00:49: 26000000 INFO @ Fri, 04 May 2018 00:00:56: 25000000 INFO @ Fri, 04 May 2018 00:00:57: 26000000 INFO @ Fri, 04 May 2018 00:00:57: 27000000 INFO @ Fri, 04 May 2018 00:01:03: 26000000 INFO @ Fri, 04 May 2018 00:01:04: 27000000 INFO @ Fri, 04 May 2018 00:01:04: 28000000 INFO @ Fri, 04 May 2018 00:01:11: 27000000 INFO @ Fri, 04 May 2018 00:01:12: 28000000 INFO @ Fri, 04 May 2018 00:01:12: 29000000 INFO @ Fri, 04 May 2018 00:01:18: 28000000 INFO @ Fri, 04 May 2018 00:01:19: 29000000 INFO @ Fri, 04 May 2018 00:01:20: 30000000 INFO @ Fri, 04 May 2018 00:01:25: 29000000 INFO @ Fri, 04 May 2018 00:01:27: 30000000 INFO @ Fri, 04 May 2018 00:01:27: 31000000 INFO @ Fri, 04 May 2018 00:01:32: 30000000 INFO @ Fri, 04 May 2018 00:01:35: 31000000 INFO @ Fri, 04 May 2018 00:01:35: 32000000 INFO @ Fri, 04 May 2018 00:01:39: 31000000 INFO @ Fri, 04 May 2018 00:01:42: 32000000 INFO @ Fri, 04 May 2018 00:01:42: 33000000 INFO @ Fri, 04 May 2018 00:01:46: 32000000 INFO @ Fri, 04 May 2018 00:01:50: 33000000 INFO @ Fri, 04 May 2018 00:01:50: 34000000 INFO @ Fri, 04 May 2018 00:01:54: 33000000 INFO @ Fri, 04 May 2018 00:01:57: 34000000 INFO @ Fri, 04 May 2018 00:01:58: 35000000 INFO @ Fri, 04 May 2018 00:02:01: 34000000 INFO @ Fri, 04 May 2018 00:02:05: 35000000 INFO @ Fri, 04 May 2018 00:02:05: 36000000 INFO @ Fri, 04 May 2018 00:02:08: 35000000 INFO @ Fri, 04 May 2018 00:02:13: 36000000 INFO @ Fri, 04 May 2018 00:02:13: 37000000 INFO @ Fri, 04 May 2018 00:02:15: 36000000 INFO @ Fri, 04 May 2018 00:02:20: 37000000 INFO @ Fri, 04 May 2018 00:02:20: 38000000 INFO @ Fri, 04 May 2018 00:02:22: 37000000 INFO @ Fri, 04 May 2018 00:02:28: 38000000 INFO @ Fri, 04 May 2018 00:02:28: 39000000 INFO @ Fri, 04 May 2018 00:02:29: 38000000 INFO @ Fri, 04 May 2018 00:02:35: 39000000 INFO @ Fri, 04 May 2018 00:02:35: 40000000 INFO @ Fri, 04 May 2018 00:02:37: 39000000 INFO @ Fri, 04 May 2018 00:02:43: 40000000 INFO @ Fri, 04 May 2018 00:02:43: 41000000 INFO @ Fri, 04 May 2018 00:02:44: 40000000 INFO @ Fri, 04 May 2018 00:02:50: 41000000 INFO @ Fri, 04 May 2018 00:02:50: 42000000 INFO @ Fri, 04 May 2018 00:02:51: 41000000 INFO @ Fri, 04 May 2018 00:02:57: 42000000 INFO @ Fri, 04 May 2018 00:02:58: 43000000 INFO @ Fri, 04 May 2018 00:02:58: 42000000 INFO @ Fri, 04 May 2018 00:03:05: 43000000 INFO @ Fri, 04 May 2018 00:03:05: 44000000 INFO @ Fri, 04 May 2018 00:03:05: 43000000 INFO @ Fri, 04 May 2018 00:03:12: 44000000 INFO @ Fri, 04 May 2018 00:03:13: 45000000 INFO @ Fri, 04 May 2018 00:03:13: 44000000 INFO @ Fri, 04 May 2018 00:03:20: 45000000 INFO @ Fri, 04 May 2018 00:03:20: 45000000 INFO @ Fri, 04 May 2018 00:03:20: 46000000 INFO @ Fri, 04 May 2018 00:03:27: 46000000 INFO @ Fri, 04 May 2018 00:03:27: 46000000 INFO @ Fri, 04 May 2018 00:03:27: 47000000 INFO @ Fri, 04 May 2018 00:03:34: 47000000 INFO @ Fri, 04 May 2018 00:03:35: 47000000 INFO @ Fri, 04 May 2018 00:03:35: 48000000 INFO @ Fri, 04 May 2018 00:03:42: 48000000 INFO @ Fri, 04 May 2018 00:03:42: 48000000 INFO @ Fri, 04 May 2018 00:03:42: 49000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 04 May 2018 00:03:49: 49000000 INFO @ Fri, 04 May 2018 00:03:49: 49000000 INFO @ Fri, 04 May 2018 00:03:50: 50000000 INFO @ Fri, 04 May 2018 00:03:56: 50000000 INFO @ Fri, 04 May 2018 00:03:57: 50000000 INFO @ Fri, 04 May 2018 00:03:57: 51000000 INFO @ Fri, 04 May 2018 00:04:03: 51000000 INFO @ Fri, 04 May 2018 00:04:04: 51000000 INFO @ Fri, 04 May 2018 00:04:05: 52000000 BigWig に変換しました。 INFO @ Fri, 04 May 2018 00:04:10: 52000000 INFO @ Fri, 04 May 2018 00:04:12: 52000000 INFO @ Fri, 04 May 2018 00:04:12: 53000000 INFO @ Fri, 04 May 2018 00:04:18: 53000000 INFO @ Fri, 04 May 2018 00:04:20: 53000000 INFO @ Fri, 04 May 2018 00:04:20: 54000000 INFO @ Fri, 04 May 2018 00:04:25: 54000000 INFO @ Fri, 04 May 2018 00:04:28: 54000000 INFO @ Fri, 04 May 2018 00:04:28: 55000000 INFO @ Fri, 04 May 2018 00:04:32: #1 tag size is determined as 100 bps INFO @ Fri, 04 May 2018 00:04:32: #1 tag size = 100 INFO @ Fri, 04 May 2018 00:04:32: #1 total tags in treatment: 25013682 INFO @ Fri, 04 May 2018 00:04:32: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 00:04:32: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 04 May 2018 00:04:32: 55000000 INFO @ Fri, 04 May 2018 00:04:32: #1 tags after filtering in treatment: 14442046 INFO @ Fri, 04 May 2018 00:04:32: #1 Redundant rate of treatment: 0.42 INFO @ Fri, 04 May 2018 00:04:32: #1 finished! INFO @ Fri, 04 May 2018 00:04:32: #2 Build Peak Model... INFO @ Fri, 04 May 2018 00:04:32: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 00:04:33: #2 number of paired peaks: 0 WARNING @ Fri, 04 May 2018 00:04:33: 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 @ Fri, 04 May 2018 00:04:33: Process for pairing-model is terminated! cat: SRX2741965.20_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 `SRX2741965.20_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 `SRX2741965.20_*.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 `SRX2741965.20_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 @ Fri, 04 May 2018 00:04:35: 55000000 INFO @ Fri, 04 May 2018 00:04:36: #1 tag size is determined as 100 bps INFO @ Fri, 04 May 2018 00:04:36: #1 tag size = 100 INFO @ Fri, 04 May 2018 00:04:36: #1 total tags in treatment: 25013682 INFO @ Fri, 04 May 2018 00:04:36: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 00:04:36: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 04 May 2018 00:04:36: #1 tags after filtering in treatment: 14442046 INFO @ Fri, 04 May 2018 00:04:36: #1 Redundant rate of treatment: 0.42 INFO @ Fri, 04 May 2018 00:04:36: #1 finished! INFO @ Fri, 04 May 2018 00:04:36: #2 Build Peak Model... INFO @ Fri, 04 May 2018 00:04:36: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 00:04:37: #2 number of paired peaks: 0 WARNING @ Fri, 04 May 2018 00:04:37: 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 @ Fri, 04 May 2018 00:04:37: Process for pairing-model is terminated! cat: SRX2741965.10_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 `SRX2741965.10_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 `SRX2741965.10_*.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 `SRX2741965.10_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 @ Fri, 04 May 2018 00:04:39: #1 tag size is determined as 100 bps INFO @ Fri, 04 May 2018 00:04:39: #1 tag size = 100 INFO @ Fri, 04 May 2018 00:04:39: #1 total tags in treatment: 25013682 INFO @ Fri, 04 May 2018 00:04:39: #1 user defined the maximum tags... INFO @ Fri, 04 May 2018 00:04:39: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 04 May 2018 00:04:40: #1 tags after filtering in treatment: 14442046 INFO @ Fri, 04 May 2018 00:04:40: #1 Redundant rate of treatment: 0.42 INFO @ Fri, 04 May 2018 00:04:40: #1 finished! INFO @ Fri, 04 May 2018 00:04:40: #2 Build Peak Model... INFO @ Fri, 04 May 2018 00:04:40: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 04 May 2018 00:04:41: #2 number of paired peaks: 0 WARNING @ Fri, 04 May 2018 00:04:41: 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 @ Fri, 04 May 2018 00:04:41: Process for pairing-model is terminated! cat: SRX2741965.05_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 `SRX2741965.05_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 `SRX2741965.05_*.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 `SRX2741965.05_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