Job ID = 7109602 SRX = SRX8036508 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 14291158 spots for SRR11458955/SRR11458955.sra Written 14291158 spots for SRR11458955/SRR11458955.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: 00:17:57 14291158 reads; of these: 14291158 (100.00%) were paired; of these: 649849 (4.55%) aligned concordantly 0 times 11253066 (78.74%) aligned concordantly exactly 1 time 2388243 (16.71%) aligned concordantly >1 times ---- 649849 pairs aligned concordantly 0 times; of these: 157060 (24.17%) aligned discordantly 1 time ---- 492789 pairs aligned 0 times concordantly or discordantly; of these: 985578 mates make up the pairs; of these: 827884 (84.00%) aligned 0 times 69491 (7.05%) aligned exactly 1 time 88203 (8.95%) aligned >1 times 97.10% overall alignment rate Time searching: 00:17:57 Overall time: 00:17:57 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] 2735711 / 13778473 = 0.1985 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 14:14:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.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 14:14:01: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:14:01: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:14:09: 1000000 INFO @ Wed, 22 Jul 2020 14:14:17: 2000000 INFO @ Wed, 22 Jul 2020 14:14:24: 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 14:14:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.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 14:14:31: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:14:31: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:14:32: 4000000 INFO @ Wed, 22 Jul 2020 14:14:40: 1000000 INFO @ Wed, 22 Jul 2020 14:14:42: 5000000 INFO @ Wed, 22 Jul 2020 14:14:49: 2000000 INFO @ Wed, 22 Jul 2020 14:14:51: 6000000 INFO @ Wed, 22 Jul 2020 14:14:57: 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 14:15:00: 7000000 INFO @ Wed, 22 Jul 2020 14:15:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.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 14:15:01: #1 read tag files... INFO @ Wed, 22 Jul 2020 14:15:01: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 14:15:06: 4000000 INFO @ Wed, 22 Jul 2020 14:15:10: 8000000 INFO @ Wed, 22 Jul 2020 14:15:10: 1000000 INFO @ Wed, 22 Jul 2020 14:15:14: 5000000 INFO @ Wed, 22 Jul 2020 14:15:18: 9000000 INFO @ Wed, 22 Jul 2020 14:15:20: 2000000 INFO @ Wed, 22 Jul 2020 14:15:21: 6000000 INFO @ Wed, 22 Jul 2020 14:15:27: 10000000 INFO @ Wed, 22 Jul 2020 14:15:28: 3000000 INFO @ Wed, 22 Jul 2020 14:15:30: 7000000 INFO @ Wed, 22 Jul 2020 14:15:36: 11000000 INFO @ Wed, 22 Jul 2020 14:15:37: 4000000 INFO @ Wed, 22 Jul 2020 14:15:38: 8000000 INFO @ Wed, 22 Jul 2020 14:15:45: 12000000 INFO @ Wed, 22 Jul 2020 14:15:47: 9000000 INFO @ Wed, 22 Jul 2020 14:15:47: 5000000 INFO @ Wed, 22 Jul 2020 14:15:55: 13000000 INFO @ Wed, 22 Jul 2020 14:15:55: 10000000 INFO @ Wed, 22 Jul 2020 14:15:57: 6000000 INFO @ Wed, 22 Jul 2020 14:16:03: 11000000 INFO @ Wed, 22 Jul 2020 14:16:04: 14000000 INFO @ Wed, 22 Jul 2020 14:16:06: 7000000 INFO @ Wed, 22 Jul 2020 14:16:11: 12000000 INFO @ Wed, 22 Jul 2020 14:16:13: 15000000 INFO @ Wed, 22 Jul 2020 14:16:16: 8000000 INFO @ Wed, 22 Jul 2020 14:16:19: 13000000 INFO @ Wed, 22 Jul 2020 14:16:22: 16000000 INFO @ Wed, 22 Jul 2020 14:16:24: 9000000 INFO @ Wed, 22 Jul 2020 14:16:27: 14000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 14:16:31: 17000000 INFO @ Wed, 22 Jul 2020 14:16:34: 10000000 INFO @ Wed, 22 Jul 2020 14:16:35: 15000000 INFO @ Wed, 22 Jul 2020 14:16:39: 18000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 14:16:43: 11000000 INFO @ Wed, 22 Jul 2020 14:16:43: 16000000 INFO @ Wed, 22 Jul 2020 14:16:48: 19000000 INFO @ Wed, 22 Jul 2020 14:16:52: 17000000 INFO @ Wed, 22 Jul 2020 14:16:52: 12000000 INFO @ Wed, 22 Jul 2020 14:16:56: 20000000 INFO @ Wed, 22 Jul 2020 14:17:00: 18000000 INFO @ Wed, 22 Jul 2020 14:17:02: 13000000 INFO @ Wed, 22 Jul 2020 14:17:04: 21000000 INFO @ Wed, 22 Jul 2020 14:17:08: 19000000 INFO @ Wed, 22 Jul 2020 14:17:11: 14000000 INFO @ Wed, 22 Jul 2020 14:17:13: 22000000 INFO @ Wed, 22 Jul 2020 14:17:15: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:17:15: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:17:15: #1 total tags in treatment: 10923554 INFO @ Wed, 22 Jul 2020 14:17:15: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:17:15: #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 14:17:15: #1 tags after filtering in treatment: 7681256 INFO @ Wed, 22 Jul 2020 14:17:15: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Jul 2020 14:17:15: #1 finished! INFO @ Wed, 22 Jul 2020 14:17:15: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:17:15: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:17:16: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:17:16: 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 14:17:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.05_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/SRX8036508/SRX8036508.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:17:17: 20000000 INFO @ Wed, 22 Jul 2020 14:17:20: 15000000 INFO @ Wed, 22 Jul 2020 14:17:26: 21000000 INFO @ Wed, 22 Jul 2020 14:17:29: 16000000 INFO @ Wed, 22 Jul 2020 14:17:35: 22000000 INFO @ Wed, 22 Jul 2020 14:17:38: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:17:38: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:17:38: #1 total tags in treatment: 10923554 INFO @ Wed, 22 Jul 2020 14:17:38: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:17:38: #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 14:17:38: #1 tags after filtering in treatment: 7681256 INFO @ Wed, 22 Jul 2020 14:17:38: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Jul 2020 14:17:38: #1 finished! INFO @ Wed, 22 Jul 2020 14:17:38: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:17:38: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:17:38: 17000000 INFO @ Wed, 22 Jul 2020 14:17:38: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:17:38: 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 14:17:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.10_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/SRX8036508/SRX8036508.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 14:17:46: 18000000 INFO @ Wed, 22 Jul 2020 14:17:54: 19000000 INFO @ Wed, 22 Jul 2020 14:18:02: 20000000 INFO @ Wed, 22 Jul 2020 14:18:09: 21000000 INFO @ Wed, 22 Jul 2020 14:18:16: 22000000 INFO @ Wed, 22 Jul 2020 14:18:19: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 14:18:19: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 14:18:19: #1 total tags in treatment: 10923554 INFO @ Wed, 22 Jul 2020 14:18:19: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 14:18:19: #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 14:18:19: #1 tags after filtering in treatment: 7681256 INFO @ Wed, 22 Jul 2020 14:18:19: #1 Redundant rate of treatment: 0.30 INFO @ Wed, 22 Jul 2020 14:18:19: #1 finished! INFO @ Wed, 22 Jul 2020 14:18:19: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 14:18:19: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 14:18:19: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 14:18:19: 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 14:18:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.20_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/SRX8036508/SRX8036508.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8036508/SRX8036508.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling