Job ID = 7105848 SRX = SRX6911534 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 11415882 spots for SRR10191145/SRR10191145.sra Written 11415882 spots for SRR10191145/SRR10191145.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: 00:14:33 11415882 reads; of these: 11415882 (100.00%) were paired; of these: 3039021 (26.62%) aligned concordantly 0 times 6148151 (53.86%) aligned concordantly exactly 1 time 2228710 (19.52%) aligned concordantly >1 times ---- 3039021 pairs aligned concordantly 0 times; of these: 1479707 (48.69%) aligned discordantly 1 time ---- 1559314 pairs aligned 0 times concordantly or discordantly; of these: 3118628 mates make up the pairs; of these: 1846927 (59.22%) aligned 0 times 358587 (11.50%) aligned exactly 1 time 913114 (29.28%) aligned >1 times 91.91% overall alignment rate Time searching: 00:14:33 Overall time: 00:14:33 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] 501619 / 9853455 = 0.0509 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 13:05:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.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 13:05:37: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:05:37: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:05:44: 1000000 INFO @ Wed, 22 Jul 2020 13:05:51: 2000000 INFO @ Wed, 22 Jul 2020 13:05:58: 3000000 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 13:06:05: 4000000 INFO @ Wed, 22 Jul 2020 13:06:07: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.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 13:06:07: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:06:07: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:06:13: 5000000 INFO @ Wed, 22 Jul 2020 13:06:15: 1000000 INFO @ Wed, 22 Jul 2020 13:06:21: 6000000 INFO @ Wed, 22 Jul 2020 13:06:23: 2000000 INFO @ Wed, 22 Jul 2020 13:06:29: 7000000 INFO @ Wed, 22 Jul 2020 13:06:31: 3000000 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 13:06:37: 8000000 INFO @ Wed, 22 Jul 2020 13:06:37: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.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 13:06:37: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:06:37: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:06:40: 4000000 INFO @ Wed, 22 Jul 2020 13:06:45: 9000000 INFO @ Wed, 22 Jul 2020 13:06:45: 1000000 INFO @ Wed, 22 Jul 2020 13:06:48: 5000000 INFO @ Wed, 22 Jul 2020 13:06:53: 10000000 INFO @ Wed, 22 Jul 2020 13:06:54: 2000000 INFO @ Wed, 22 Jul 2020 13:06:56: 6000000 INFO @ Wed, 22 Jul 2020 13:07:02: 11000000 INFO @ Wed, 22 Jul 2020 13:07:02: 3000000 INFO @ Wed, 22 Jul 2020 13:07:05: 7000000 INFO @ Wed, 22 Jul 2020 13:07:10: 12000000 INFO @ Wed, 22 Jul 2020 13:07:10: 4000000 INFO @ Wed, 22 Jul 2020 13:07:13: 8000000 INFO @ Wed, 22 Jul 2020 13:07:18: 13000000 INFO @ Wed, 22 Jul 2020 13:07:18: 5000000 INFO @ Wed, 22 Jul 2020 13:07:21: 9000000 INFO @ Wed, 22 Jul 2020 13:07:26: 14000000 INFO @ Wed, 22 Jul 2020 13:07:27: 6000000 INFO @ Wed, 22 Jul 2020 13:07:30: 10000000 INFO @ Wed, 22 Jul 2020 13:07:34: 15000000 INFO @ Wed, 22 Jul 2020 13:07:35: 7000000 INFO @ Wed, 22 Jul 2020 13:07:38: 11000000 INFO @ Wed, 22 Jul 2020 13:07:42: 16000000 INFO @ Wed, 22 Jul 2020 13:07:43: 8000000 INFO @ Wed, 22 Jul 2020 13:07:46: 12000000 INFO @ Wed, 22 Jul 2020 13:07:51: 17000000 INFO @ Wed, 22 Jul 2020 13:07:52: 9000000 INFO @ Wed, 22 Jul 2020 13:07:55: 13000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 13:07:59: 18000000 INFO @ Wed, 22 Jul 2020 13:08:00: 10000000 INFO @ Wed, 22 Jul 2020 13:08:03: 14000000 INFO @ Wed, 22 Jul 2020 13:08:07: 19000000 INFO @ Wed, 22 Jul 2020 13:08:08: 11000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 13:08:11: 15000000 INFO @ Wed, 22 Jul 2020 13:08:15: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:08:15: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:08:15: #1 total tags in treatment: 7881706 INFO @ Wed, 22 Jul 2020 13:08:15: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:08:15: #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 13:08:15: #1 tags after filtering in treatment: 5177275 INFO @ Wed, 22 Jul 2020 13:08:15: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 13:08:15: #1 finished! INFO @ Wed, 22 Jul 2020 13:08:15: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:08:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:08:16: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:08:16: 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 13:08:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.05_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/SRX6911534/SRX6911534.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:08:16: 12000000 INFO @ Wed, 22 Jul 2020 13:08:19: 16000000 INFO @ Wed, 22 Jul 2020 13:08:24: 13000000 INFO @ Wed, 22 Jul 2020 13:08:28: 17000000 INFO @ Wed, 22 Jul 2020 13:08:32: 14000000 INFO @ Wed, 22 Jul 2020 13:08:36: 18000000 INFO @ Wed, 22 Jul 2020 13:08:40: 15000000 INFO @ Wed, 22 Jul 2020 13:08:44: 19000000 INFO @ Wed, 22 Jul 2020 13:08:49: 16000000 INFO @ Wed, 22 Jul 2020 13:08:52: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:08:52: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:08:52: #1 total tags in treatment: 7881706 INFO @ Wed, 22 Jul 2020 13:08:52: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:08:52: #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 13:08:52: #1 tags after filtering in treatment: 5177275 INFO @ Wed, 22 Jul 2020 13:08:52: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 13:08:52: #1 finished! INFO @ Wed, 22 Jul 2020 13:08:52: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:08:52: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:08:53: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:08:53: 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 13:08:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.10_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/SRX6911534/SRX6911534.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:08:56: 17000000 INFO @ Wed, 22 Jul 2020 13:09:03: 18000000 INFO @ Wed, 22 Jul 2020 13:09:10: 19000000 INFO @ Wed, 22 Jul 2020 13:09:17: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:09:17: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:09:17: #1 total tags in treatment: 7881706 INFO @ Wed, 22 Jul 2020 13:09:17: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:09:17: #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 13:09:17: #1 tags after filtering in treatment: 5177275 INFO @ Wed, 22 Jul 2020 13:09:17: #1 Redundant rate of treatment: 0.34 INFO @ Wed, 22 Jul 2020 13:09:17: #1 finished! INFO @ Wed, 22 Jul 2020 13:09:17: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:09:17: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:09:18: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:09:18: 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 13:09:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.20_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/SRX6911534/SRX6911534.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911534/SRX6911534.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling