Job ID = 7107202 SRX = SRX6911546 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 16166537 spots for SRR10191173/SRR10191173.sra Written 16166537 spots for SRR10191173/SRR10191173.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: 00:14:00 16166537 reads; of these: 16166537 (100.00%) were paired; of these: 6260725 (38.73%) aligned concordantly 0 times 7787259 (48.17%) aligned concordantly exactly 1 time 2118553 (13.10%) aligned concordantly >1 times ---- 6260725 pairs aligned concordantly 0 times; of these: 1011942 (16.16%) aligned discordantly 1 time ---- 5248783 pairs aligned 0 times concordantly or discordantly; of these: 10497566 mates make up the pairs; of these: 9383040 (89.38%) aligned 0 times 555184 (5.29%) aligned exactly 1 time 559342 (5.33%) aligned >1 times 70.98% overall alignment rate Time searching: 00:14:00 Overall time: 00:14:00 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] 844254 / 10915061 = 0.0773 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 13:24:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.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 13:24:30: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:24:30: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:24:37: 1000000 INFO @ Wed, 22 Jul 2020 13:24:44: 2000000 INFO @ Wed, 22 Jul 2020 13:24:50: 3000000 INFO @ Wed, 22 Jul 2020 13:24:57: 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 13:24:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.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 13:24:59: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:24:59: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:25:04: 5000000 INFO @ Wed, 22 Jul 2020 13:25:08: 1000000 INFO @ Wed, 22 Jul 2020 13:25:12: 6000000 INFO @ Wed, 22 Jul 2020 13:25:16: 2000000 INFO @ Wed, 22 Jul 2020 13:25:20: 7000000 INFO @ Wed, 22 Jul 2020 13:25:25: 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 13:25:28: 8000000 INFO @ Wed, 22 Jul 2020 13:25:29: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.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 13:25:29: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:25:29: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:25:33: 4000000 INFO @ Wed, 22 Jul 2020 13:25:36: 9000000 INFO @ Wed, 22 Jul 2020 13:25:38: 1000000 INFO @ Wed, 22 Jul 2020 13:25:42: 5000000 INFO @ Wed, 22 Jul 2020 13:25:45: 10000000 INFO @ Wed, 22 Jul 2020 13:25:46: 2000000 INFO @ Wed, 22 Jul 2020 13:25:51: 6000000 INFO @ Wed, 22 Jul 2020 13:25:53: 11000000 INFO @ Wed, 22 Jul 2020 13:25:55: 3000000 INFO @ Wed, 22 Jul 2020 13:25:59: 7000000 INFO @ Wed, 22 Jul 2020 13:26:01: 12000000 INFO @ Wed, 22 Jul 2020 13:26:03: 4000000 INFO @ Wed, 22 Jul 2020 13:26:08: 8000000 INFO @ Wed, 22 Jul 2020 13:26:09: 13000000 INFO @ Wed, 22 Jul 2020 13:26:12: 5000000 INFO @ Wed, 22 Jul 2020 13:26:17: 9000000 INFO @ Wed, 22 Jul 2020 13:26:17: 14000000 INFO @ Wed, 22 Jul 2020 13:26:21: 6000000 INFO @ Wed, 22 Jul 2020 13:26:25: 15000000 INFO @ Wed, 22 Jul 2020 13:26:26: 10000000 INFO @ Wed, 22 Jul 2020 13:26:29: 7000000 INFO @ Wed, 22 Jul 2020 13:26:33: 16000000 INFO @ Wed, 22 Jul 2020 13:26:34: 11000000 INFO @ Wed, 22 Jul 2020 13:26:38: 8000000 INFO @ Wed, 22 Jul 2020 13:26:41: 17000000 INFO @ Wed, 22 Jul 2020 13:26:43: 12000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 13:26:46: 9000000 INFO @ Wed, 22 Jul 2020 13:26:49: 18000000 INFO @ Wed, 22 Jul 2020 13:26:52: 13000000 INFO @ Wed, 22 Jul 2020 13:26:55: 10000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 13:26:57: 19000000 INFO @ Wed, 22 Jul 2020 13:27:00: 14000000 INFO @ Wed, 22 Jul 2020 13:27:03: 11000000 INFO @ Wed, 22 Jul 2020 13:27:06: 20000000 INFO @ Wed, 22 Jul 2020 13:27:09: 15000000 INFO @ Wed, 22 Jul 2020 13:27:12: 12000000 INFO @ Wed, 22 Jul 2020 13:27:14: 21000000 INFO @ Wed, 22 Jul 2020 13:27:16: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:27:16: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:27:16: #1 total tags in treatment: 9087730 INFO @ Wed, 22 Jul 2020 13:27:16: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:27:16: #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 13:27:16: #1 tags after filtering in treatment: 6276877 INFO @ Wed, 22 Jul 2020 13:27:16: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 13:27:16: #1 finished! INFO @ Wed, 22 Jul 2020 13:27:16: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:27:16: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:27:16: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:27:16: 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 13:27:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.05_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/SRX6911546/SRX6911546.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:27:18: 16000000 INFO @ Wed, 22 Jul 2020 13:27:21: 13000000 INFO @ Wed, 22 Jul 2020 13:27:26: 17000000 INFO @ Wed, 22 Jul 2020 13:27:29: 14000000 INFO @ Wed, 22 Jul 2020 13:27:35: 18000000 INFO @ Wed, 22 Jul 2020 13:27:37: 15000000 INFO @ Wed, 22 Jul 2020 13:27:43: 19000000 INFO @ Wed, 22 Jul 2020 13:27:46: 16000000 INFO @ Wed, 22 Jul 2020 13:27:52: 20000000 INFO @ Wed, 22 Jul 2020 13:27:54: 17000000 INFO @ Wed, 22 Jul 2020 13:28:01: 21000000 INFO @ Wed, 22 Jul 2020 13:28:03: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:28:03: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:28:03: #1 total tags in treatment: 9087730 INFO @ Wed, 22 Jul 2020 13:28:03: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:28:03: #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 13:28:03: 18000000 INFO @ Wed, 22 Jul 2020 13:28:03: #1 tags after filtering in treatment: 6276877 INFO @ Wed, 22 Jul 2020 13:28:03: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 13:28:03: #1 finished! INFO @ Wed, 22 Jul 2020 13:28:03: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:28:03: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:28:03: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:28:03: 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 13:28:03: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.10_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/SRX6911546/SRX6911546.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:28:11: 19000000 INFO @ Wed, 22 Jul 2020 13:28:19: 20000000 INFO @ Wed, 22 Jul 2020 13:28:26: 21000000 INFO @ Wed, 22 Jul 2020 13:28:28: #1 tag size is determined as 101 bps INFO @ Wed, 22 Jul 2020 13:28:28: #1 tag size = 101 INFO @ Wed, 22 Jul 2020 13:28:28: #1 total tags in treatment: 9087730 INFO @ Wed, 22 Jul 2020 13:28:28: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:28:28: #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 13:28:28: #1 tags after filtering in treatment: 6276877 INFO @ Wed, 22 Jul 2020 13:28:28: #1 Redundant rate of treatment: 0.31 INFO @ Wed, 22 Jul 2020 13:28:28: #1 finished! INFO @ Wed, 22 Jul 2020 13:28:28: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:28:28: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:28:29: #2 number of paired peaks: 0 WARNING @ Wed, 22 Jul 2020 13:28:29: 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 13:28:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.20_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/SRX6911546/SRX6911546.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6911546/SRX6911546.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling