Job ID = 10223990 SRX = SRX7973303 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 32189806 spots for SRR11394486/SRR11394486.sra Written 32189806 spots for SRR11394486/SRR11394486.sra 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: 00:10:17 32189806 reads; of these: 32189806 (100.00%) were paired; of these: 11140912 (34.61%) aligned concordantly 0 times 16770576 (52.10%) aligned concordantly exactly 1 time 4278318 (13.29%) aligned concordantly >1 times ---- 11140912 pairs aligned concordantly 0 times; of these: 468210 (4.20%) aligned discordantly 1 time ---- 10672702 pairs aligned 0 times concordantly or discordantly; of these: 21345404 mates make up the pairs; of these: 20770272 (97.31%) aligned 0 times 237918 (1.11%) aligned exactly 1 time 337214 (1.58%) aligned >1 times 67.74% overall alignment rate Time searching: 00:10:17 Overall time: 00:10:17 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 12 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] 1661703 / 21513454 = 0.0772 in library ' ' BAM に変換しました。 Bed ファイルを作成中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 09:23:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.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 @ Fri, 16 Oct 2020 09:23:29: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:23:29: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:23:34: 1000000 INFO @ Fri, 16 Oct 2020 09:23:39: 2000000 INFO @ Fri, 16 Oct 2020 09:23:43: 3000000 INFO @ Fri, 16 Oct 2020 09:23:48: 4000000 INFO @ Fri, 16 Oct 2020 09:23:53: 5000000 INFO @ Fri, 16 Oct 2020 09:23:57: 6000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 09:23:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.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 @ Fri, 16 Oct 2020 09:23:59: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:23:59: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:24:03: 7000000 INFO @ Fri, 16 Oct 2020 09:24:05: 1000000 INFO @ Fri, 16 Oct 2020 09:24:08: 8000000 INFO @ Fri, 16 Oct 2020 09:24:10: 2000000 INFO @ Fri, 16 Oct 2020 09:24:13: 9000000 INFO @ Fri, 16 Oct 2020 09:24:15: 3000000 INFO @ Fri, 16 Oct 2020 09:24:19: 10000000 INFO @ Fri, 16 Oct 2020 09:24:21: 4000000 INFO @ Fri, 16 Oct 2020 09:24:24: 11000000 INFO @ Fri, 16 Oct 2020 09:24:26: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Fri, 16 Oct 2020 09:24:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.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 @ Fri, 16 Oct 2020 09:24:29: #1 read tag files... INFO @ Fri, 16 Oct 2020 09:24:29: #1 read treatment tags... INFO @ Fri, 16 Oct 2020 09:24:30: 12000000 INFO @ Fri, 16 Oct 2020 09:24:32: 6000000 INFO @ Fri, 16 Oct 2020 09:24:36: 13000000 INFO @ Fri, 16 Oct 2020 09:24:36: 1000000 INFO @ Fri, 16 Oct 2020 09:24:38: 7000000 INFO @ Fri, 16 Oct 2020 09:24:42: 14000000 INFO @ Fri, 16 Oct 2020 09:24:42: 2000000 INFO @ Fri, 16 Oct 2020 09:24:44: 8000000 INFO @ Fri, 16 Oct 2020 09:24:48: 15000000 INFO @ Fri, 16 Oct 2020 09:24:49: 3000000 INFO @ Fri, 16 Oct 2020 09:24:50: 9000000 INFO @ Fri, 16 Oct 2020 09:24:54: 16000000 INFO @ Fri, 16 Oct 2020 09:24:55: 4000000 INFO @ Fri, 16 Oct 2020 09:24:56: 10000000 INFO @ Fri, 16 Oct 2020 09:25:00: 17000000 INFO @ Fri, 16 Oct 2020 09:25:02: 5000000 INFO @ Fri, 16 Oct 2020 09:25:03: 11000000 INFO @ Fri, 16 Oct 2020 09:25:06: 18000000 INFO @ Fri, 16 Oct 2020 09:25:08: 6000000 INFO @ Fri, 16 Oct 2020 09:25:09: 12000000 INFO @ Fri, 16 Oct 2020 09:25:12: 19000000 INFO @ Fri, 16 Oct 2020 09:25:15: 7000000 INFO @ Fri, 16 Oct 2020 09:25:15: 13000000 INFO @ Fri, 16 Oct 2020 09:25:18: 20000000 INFO @ Fri, 16 Oct 2020 09:25:21: 14000000 INFO @ Fri, 16 Oct 2020 09:25:21: 8000000 INFO @ Fri, 16 Oct 2020 09:25:24: 21000000 INFO @ Fri, 16 Oct 2020 09:25:27: 15000000 INFO @ Fri, 16 Oct 2020 09:25:28: 9000000 INFO @ Fri, 16 Oct 2020 09:25:30: 22000000 INFO @ Fri, 16 Oct 2020 09:25:33: 16000000 INFO @ Fri, 16 Oct 2020 09:25:34: 10000000 INFO @ Fri, 16 Oct 2020 09:25:37: 23000000 INFO @ Fri, 16 Oct 2020 09:25:39: 17000000 INFO @ Fri, 16 Oct 2020 09:25:41: 11000000 INFO @ Fri, 16 Oct 2020 09:25:43: 24000000 INFO @ Fri, 16 Oct 2020 09:25:45: 18000000 INFO @ Fri, 16 Oct 2020 09:25:47: 12000000 INFO @ Fri, 16 Oct 2020 09:25:49: 25000000 INFO @ Fri, 16 Oct 2020 09:25:51: 19000000 INFO @ Fri, 16 Oct 2020 09:25:54: 13000000 INFO @ Fri, 16 Oct 2020 09:25:55: 26000000 INFO @ Fri, 16 Oct 2020 09:25:57: 20000000 INFO @ Fri, 16 Oct 2020 09:26:00: 14000000 INFO @ Fri, 16 Oct 2020 09:26:01: 27000000 INFO @ Fri, 16 Oct 2020 09:26:03: 21000000 INFO @ Fri, 16 Oct 2020 09:26:07: 28000000 INFO @ Fri, 16 Oct 2020 09:26:07: 15000000 INFO @ Fri, 16 Oct 2020 09:26:09: 22000000 INFO @ Fri, 16 Oct 2020 09:26:13: 29000000 INFO @ Fri, 16 Oct 2020 09:26:13: 16000000 INFO @ Fri, 16 Oct 2020 09:26:15: 23000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Fri, 16 Oct 2020 09:26:19: 30000000 INFO @ Fri, 16 Oct 2020 09:26:20: 17000000 INFO @ Fri, 16 Oct 2020 09:26:21: 24000000 INFO @ Fri, 16 Oct 2020 09:26:25: 31000000 INFO @ Fri, 16 Oct 2020 09:26:26: 18000000 INFO @ Fri, 16 Oct 2020 09:26:27: 25000000 INFO @ Fri, 16 Oct 2020 09:26:31: 32000000 BigWig に変換しました。 INFO @ Fri, 16 Oct 2020 09:26:33: 26000000 INFO @ Fri, 16 Oct 2020 09:26:33: 19000000 INFO @ Fri, 16 Oct 2020 09:26:37: 33000000 INFO @ Fri, 16 Oct 2020 09:26:39: 27000000 INFO @ Fri, 16 Oct 2020 09:26:39: 20000000 INFO @ Fri, 16 Oct 2020 09:26:43: 34000000 INFO @ Fri, 16 Oct 2020 09:26:45: 28000000 INFO @ Fri, 16 Oct 2020 09:26:46: 21000000 INFO @ Fri, 16 Oct 2020 09:26:49: 35000000 INFO @ Fri, 16 Oct 2020 09:26:51: 29000000 INFO @ Fri, 16 Oct 2020 09:26:52: 22000000 INFO @ Fri, 16 Oct 2020 09:26:55: 36000000 INFO @ Fri, 16 Oct 2020 09:26:57: 30000000 INFO @ Fri, 16 Oct 2020 09:26:59: 23000000 INFO @ Fri, 16 Oct 2020 09:27:01: 37000000 INFO @ Fri, 16 Oct 2020 09:27:03: 31000000 INFO @ Fri, 16 Oct 2020 09:27:05: 24000000 INFO @ Fri, 16 Oct 2020 09:27:07: 38000000 INFO @ Fri, 16 Oct 2020 09:27:09: 32000000 INFO @ Fri, 16 Oct 2020 09:27:12: 25000000 INFO @ Fri, 16 Oct 2020 09:27:13: 39000000 INFO @ Fri, 16 Oct 2020 09:27:15: 33000000 INFO @ Fri, 16 Oct 2020 09:27:18: 26000000 INFO @ Fri, 16 Oct 2020 09:27:19: 40000000 INFO @ Fri, 16 Oct 2020 09:27:20: #1 tag size is determined as 36 bps INFO @ Fri, 16 Oct 2020 09:27:20: #1 tag size = 36 INFO @ Fri, 16 Oct 2020 09:27:20: #1 total tags in treatment: 19401107 INFO @ Fri, 16 Oct 2020 09:27:20: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:27:20: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:27:21: 34000000 INFO @ Fri, 16 Oct 2020 09:27:21: #1 tags after filtering in treatment: 11613286 INFO @ Fri, 16 Oct 2020 09:27:21: #1 Redundant rate of treatment: 0.40 INFO @ Fri, 16 Oct 2020 09:27:21: #1 finished! INFO @ Fri, 16 Oct 2020 09:27:21: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:27:21: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:27:21: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:27:21: 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, 16 Oct 2020 09:27:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 0 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:27:25: 27000000 INFO @ Fri, 16 Oct 2020 09:27:27: 35000000 INFO @ Fri, 16 Oct 2020 09:27:31: 28000000 INFO @ Fri, 16 Oct 2020 09:27:33: 36000000 INFO @ Fri, 16 Oct 2020 09:27:38: 29000000 INFO @ Fri, 16 Oct 2020 09:27:39: 37000000 INFO @ Fri, 16 Oct 2020 09:27:44: 30000000 INFO @ Fri, 16 Oct 2020 09:27:45: 38000000 INFO @ Fri, 16 Oct 2020 09:27:50: 39000000 INFO @ Fri, 16 Oct 2020 09:27:51: 31000000 INFO @ Fri, 16 Oct 2020 09:27:56: 40000000 INFO @ Fri, 16 Oct 2020 09:27:57: 32000000 INFO @ Fri, 16 Oct 2020 09:27:58: #1 tag size is determined as 36 bps INFO @ Fri, 16 Oct 2020 09:27:58: #1 tag size = 36 INFO @ Fri, 16 Oct 2020 09:27:58: #1 total tags in treatment: 19401107 INFO @ Fri, 16 Oct 2020 09:27:58: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:27:58: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:27:58: #1 tags after filtering in treatment: 11613286 INFO @ Fri, 16 Oct 2020 09:27:58: #1 Redundant rate of treatment: 0.40 INFO @ Fri, 16 Oct 2020 09:27:58: #1 finished! INFO @ Fri, 16 Oct 2020 09:27:58: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:27:58: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:27:59: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:27:59: 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, 16 Oct 2020 09:27:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Fri, 16 Oct 2020 09:28:03: 33000000 INFO @ Fri, 16 Oct 2020 09:28:09: 34000000 INFO @ Fri, 16 Oct 2020 09:28:15: 35000000 INFO @ Fri, 16 Oct 2020 09:28:21: 36000000 INFO @ Fri, 16 Oct 2020 09:28:27: 37000000 INFO @ Fri, 16 Oct 2020 09:28:33: 38000000 INFO @ Fri, 16 Oct 2020 09:28:39: 39000000 INFO @ Fri, 16 Oct 2020 09:28:45: 40000000 INFO @ Fri, 16 Oct 2020 09:28:46: #1 tag size is determined as 36 bps INFO @ Fri, 16 Oct 2020 09:28:46: #1 tag size = 36 INFO @ Fri, 16 Oct 2020 09:28:46: #1 total tags in treatment: 19401107 INFO @ Fri, 16 Oct 2020 09:28:46: #1 user defined the maximum tags... INFO @ Fri, 16 Oct 2020 09:28:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Fri, 16 Oct 2020 09:28:47: #1 tags after filtering in treatment: 11613286 INFO @ Fri, 16 Oct 2020 09:28:47: #1 Redundant rate of treatment: 0.40 INFO @ Fri, 16 Oct 2020 09:28:47: #1 finished! INFO @ Fri, 16 Oct 2020 09:28:47: #2 Build Peak Model... INFO @ Fri, 16 Oct 2020 09:28:47: #2 looking for paired plus/minus strand peaks... INFO @ Fri, 16 Oct 2020 09:28:47: #2 number of paired peaks: 0 WARNING @ Fri, 16 Oct 2020 09:28:47: 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, 16 Oct 2020 09:28:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7973303/SRX7973303.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling