Job ID = 7111166 SRX = SRX8053697 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 23062854 spots for SRR11477538/SRR11477538.sra Written 23062854 spots for SRR11477538/SRR11477538.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: 00:15:09 23062854 reads; of these: 23062854 (100.00%) were paired; of these: 4409987 (19.12%) aligned concordantly 0 times 14510652 (62.92%) aligned concordantly exactly 1 time 4142215 (17.96%) aligned concordantly >1 times ---- 4409987 pairs aligned concordantly 0 times; of these: 1799807 (40.81%) aligned discordantly 1 time ---- 2610180 pairs aligned 0 times concordantly or discordantly; of these: 5220360 mates make up the pairs; of these: 2563392 (49.10%) aligned 0 times 1269594 (24.32%) aligned exactly 1 time 1387374 (26.58%) aligned >1 times 94.44% overall alignment rate Time searching: 00:15:09 Overall time: 00:15:09 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 20 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] 11684886 / 19814305 = 0.5897 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 @ Wed, 22 Jul 2020 14:28:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.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 @ Wed, 22 Jul 2020 14:28:54: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:28:54: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:29:00: 1000000 INFO @ Wed, 22 Jul 2020 14:29:05: 2000000 INFO @ Wed, 22 Jul 2020 14:29:11: 3000000 INFO @ Wed, 22 Jul 2020 14:29:17: 4000000 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 @ Wed, 22 Jul 2020 14:29:22: 5000000 INFO @ Wed, 22 Jul 2020 14:29:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.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 @ Wed, 22 Jul 2020 14:29:24: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:29:24: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:29:29: 6000000 INFO @ Wed, 22 Jul 2020 14:29:30: 1000000 INFO @ Wed, 22 Jul 2020 14:29:35: 7000000 INFO @ Wed, 22 Jul 2020 14:29:37: 2000000 INFO @ Wed, 22 Jul 2020 14:29:42: 8000000 INFO @ Wed, 22 Jul 2020 14:29:43: 3000000 INFO @ Wed, 22 Jul 2020 14:29:48: 9000000 INFO @ Wed, 22 Jul 2020 14:29:50: 4000000 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 @ Wed, 22 Jul 2020 14:29:54: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.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 @ Wed, 22 Jul 2020 14:29:54: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:29:54: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:29:55: 10000000 INFO @ Wed, 22 Jul 2020 14:29:57: 5000000 INFO @ Wed, 22 Jul 2020 14:30:01: 1000000 INFO @ Wed, 22 Jul 2020 14:30:02: 11000000 INFO @ Wed, 22 Jul 2020 14:30:03: 6000000 INFO @ Wed, 22 Jul 2020 14:30:07: 2000000 INFO @ Wed, 22 Jul 2020 14:30:09: 12000000 INFO @ Wed, 22 Jul 2020 14:30:10: 7000000 INFO @ Wed, 22 Jul 2020 14:30:14: 3000000 INFO @ Wed, 22 Jul 2020 14:30:15: 13000000 INFO @ Wed, 22 Jul 2020 14:30:17: 8000000 INFO @ Wed, 22 Jul 2020 14:30:21: 4000000 INFO @ Wed, 22 Jul 2020 14:30:22: 14000000 INFO @ Wed, 22 Jul 2020 14:30:23: 9000000 INFO @ Wed, 22 Jul 2020 14:30:27: 5000000 INFO @ Wed, 22 Jul 2020 14:30:29: 15000000 INFO @ Wed, 22 Jul 2020 14:30:30: 10000000 INFO @ Wed, 22 Jul 2020 14:30:34: 6000000 INFO @ Wed, 22 Jul 2020 14:30:35: 16000000 INFO @ Wed, 22 Jul 2020 14:30:37: 11000000 INFO @ Wed, 22 Jul 2020 14:30:41: 7000000 INFO @ Wed, 22 Jul 2020 14:30:42: 17000000 INFO @ Wed, 22 Jul 2020 14:30:43: 12000000 INFO @ Wed, 22 Jul 2020 14:30:47: 8000000 INFO @ Wed, 22 Jul 2020 14:30:49: 18000000 INFO @ Wed, 22 Jul 2020 14:30:50: 13000000 INFO @ Wed, 22 Jul 2020 14:30:54: 9000000 INFO @ Wed, 22 Jul 2020 14:30:55: 19000000 INFO @ Wed, 22 Jul 2020 14:30:56: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:31:01: 10000000 INFO @ Wed, 22 Jul 2020 14:31:02: 20000000 INFO @ Wed, 22 Jul 2020 14:31:03: 15000000 INFO @ Wed, 22 Jul 2020 14:31:03: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 14:31:03: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 14:31:03: #1 total tags in treatment: 7514406 INFO @ Wed, 22 Jul 2020 14:31:03: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:31:03: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:31:03: #1 tags after filtering in treatment: 5090501 INFO @ Wed, 22 Jul 2020 14:31:03: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 22 Jul 2020 14:31:03: #1 finished! INFO @ Wed, 22 Jul 2020 14:31:03: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:31:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:31:04: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:31:04: 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 @ Wed, 22 Jul 2020 14:31:04: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.05_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/SRX8053697/SRX8053697.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:31:07: 11000000 INFO @ Wed, 22 Jul 2020 14:31:10: 16000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:31:14: 12000000 INFO @ Wed, 22 Jul 2020 14:31:16: 17000000 INFO @ Wed, 22 Jul 2020 14:31:20: 13000000 INFO @ Wed, 22 Jul 2020 14:31:23: 18000000 INFO @ Wed, 22 Jul 2020 14:31:27: 14000000 INFO @ Wed, 22 Jul 2020 14:31:29: 19000000 INFO @ Wed, 22 Jul 2020 14:31:34: 15000000 INFO @ Wed, 22 Jul 2020 14:31:36: 20000000 INFO @ Wed, 22 Jul 2020 14:31:37: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 14:31:37: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 14:31:37: #1 total tags in treatment: 7514406 INFO @ Wed, 22 Jul 2020 14:31:37: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:31:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:31:37: #1 tags after filtering in treatment: 5090501 INFO @ Wed, 22 Jul 2020 14:31:37: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 22 Jul 2020 14:31:37: #1 finished! INFO @ Wed, 22 Jul 2020 14:31:37: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:31:37: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:31:38: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:31:38: 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 @ Wed, 22 Jul 2020 14:31:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.10_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/SRX8053697/SRX8053697.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:31:40: 16000000 INFO @ Wed, 22 Jul 2020 14:31:46: 17000000 INFO @ Wed, 22 Jul 2020 14:31:52: 18000000 INFO @ Wed, 22 Jul 2020 14:31:57: 19000000 INFO @ Wed, 22 Jul 2020 14:32:03: 20000000 INFO @ Wed, 22 Jul 2020 14:32:04: #1 tag size is determined as 50 bps INFO @ Wed, 22 Jul 2020 14:32:04: #1 tag size = 50 INFO @ Wed, 22 Jul 2020 14:32:04: #1 total tags in treatment: 7514406 INFO @ Wed, 22 Jul 2020 14:32:04: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:32:04: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 22 Jul 2020 14:32:04: #1 tags after filtering in treatment: 5090501 INFO @ Wed, 22 Jul 2020 14:32:04: #1 Redundant rate of treatment: 0.32 INFO @ Wed, 22 Jul 2020 14:32:04: #1 finished! INFO @ Wed, 22 Jul 2020 14:32:04: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:32:04: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:32:05: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:32:05: 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 @ Wed, 22 Jul 2020 14:32:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.20_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/SRX8053697/SRX8053697.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8053697/SRX8053697.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling