Job ID = 7108069 SRX = SRX7217649 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 14062216 spots for SRR10533726/SRR10533726.sra Written 14062216 spots for SRR10533726/SRR10533726.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: 00:13:04 14062216 reads; of these: 14062216 (100.00%) were paired; of these: 6658482 (47.35%) aligned concordantly 0 times 6207451 (44.14%) aligned concordantly exactly 1 time 1196283 (8.51%) aligned concordantly >1 times ---- 6658482 pairs aligned concordantly 0 times; of these: 779602 (11.71%) aligned discordantly 1 time ---- 5878880 pairs aligned 0 times concordantly or discordantly; of these: 11757760 mates make up the pairs; of these: 11233116 (95.54%) aligned 0 times 146811 (1.25%) aligned exactly 1 time 377833 (3.21%) aligned >1 times 60.06% overall alignment rate Time searching: 00:13:04 Overall time: 00:13:04 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 16 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] 2266617 / 8159476 = 0.2778 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 13:38:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.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 13:38:23: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:38:23: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:38:30: 1000000 INFO @ Wed, 22 Jul 2020 13:38:36: 2000000 INFO @ Wed, 22 Jul 2020 13:38:43: 3000000 INFO @ Wed, 22 Jul 2020 13:38:49: 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 13:38:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.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 13:38:53: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:38:53: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:38:56: 5000000 INFO @ Wed, 22 Jul 2020 13:39:01: 1000000 INFO @ Wed, 22 Jul 2020 13:39:03: 6000000 INFO @ Wed, 22 Jul 2020 13:39:08: 2000000 INFO @ Wed, 22 Jul 2020 13:39:10: 7000000 INFO @ Wed, 22 Jul 2020 13:39:15: 3000000 INFO @ Wed, 22 Jul 2020 13:39:17: 8000000 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 13:39:22: 4000000 INFO @ Wed, 22 Jul 2020 13:39:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.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 13:39:23: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:39:23: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:39:24: 9000000 INFO @ Wed, 22 Jul 2020 13:39:29: 5000000 INFO @ Wed, 22 Jul 2020 13:39:31: 10000000 INFO @ Wed, 22 Jul 2020 13:39:32: 1000000 INFO @ Wed, 22 Jul 2020 13:39:37: 6000000 INFO @ Wed, 22 Jul 2020 13:39:38: 11000000 INFO @ Wed, 22 Jul 2020 13:39:40: 2000000 INFO @ Wed, 22 Jul 2020 13:39:44: 7000000 INFO @ Wed, 22 Jul 2020 13:39:46: 12000000 INFO @ Wed, 22 Jul 2020 13:39:49: 3000000 INFO @ Wed, 22 Jul 2020 13:39:49: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:39:49: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:39:49: #1 total tags in treatment: 5360541 INFO @ Wed, 22 Jul 2020 13:39:49: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:39:49: #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 13:39:49: #1 tags after filtering in treatment: 4263423 INFO @ Wed, 22 Jul 2020 13:39:49: #1 Redundant rate of treatment: 0.20 INFO @ Wed, 22 Jul 2020 13:39:49: #1 finished! INFO @ Wed, 22 Jul 2020 13:39:49: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:39:49: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:39:50: #2 number of paired peaks: 34 WARNING @ Wed, 22 Jul 2020 13:39:50: Too few paired peaks (34) 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 13:39:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.05_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/SRX7217649/SRX7217649.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:39:52: 8000000 INFO @ Wed, 22 Jul 2020 13:39:57: 4000000 INFO @ Wed, 22 Jul 2020 13:39:59: 9000000 INFO @ Wed, 22 Jul 2020 13:40:06: 5000000 INFO @ Wed, 22 Jul 2020 13:40:06: 10000000 INFO @ Wed, 22 Jul 2020 13:40:14: 11000000 INFO @ Wed, 22 Jul 2020 13:40:14: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 13:40:22: 12000000 INFO @ Wed, 22 Jul 2020 13:40:22: 7000000 INFO @ Wed, 22 Jul 2020 13:40:25: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:40:25: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:40:25: #1 total tags in treatment: 5360541 INFO @ Wed, 22 Jul 2020 13:40:25: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:40:25: #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 13:40:25: #1 tags after filtering in treatment: 4263423 INFO @ Wed, 22 Jul 2020 13:40:25: #1 Redundant rate of treatment: 0.20 INFO @ Wed, 22 Jul 2020 13:40:25: #1 finished! INFO @ Wed, 22 Jul 2020 13:40:25: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:40:25: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:40:25: #2 number of paired peaks: 34 WARNING @ Wed, 22 Jul 2020 13:40:25: Too few paired peaks (34) 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 13:40:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.10_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/SRX7217649/SRX7217649.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:40:31: 8000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 13:40:38: 9000000 INFO @ Wed, 22 Jul 2020 13:40:46: 10000000 INFO @ Wed, 22 Jul 2020 13:40:54: 11000000 INFO @ Wed, 22 Jul 2020 13:41:02: 12000000 INFO @ Wed, 22 Jul 2020 13:41:05: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:41:05: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:41:05: #1 total tags in treatment: 5360541 INFO @ Wed, 22 Jul 2020 13:41:05: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:41:05: #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 13:41:05: #1 tags after filtering in treatment: 4263423 INFO @ Wed, 22 Jul 2020 13:41:05: #1 Redundant rate of treatment: 0.20 INFO @ Wed, 22 Jul 2020 13:41:05: #1 finished! INFO @ Wed, 22 Jul 2020 13:41:05: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:41:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:41:05: #2 number of paired peaks: 34 WARNING @ Wed, 22 Jul 2020 13:41:05: Too few paired peaks (34) 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 13:41:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.20_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/SRX7217649/SRX7217649.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217649/SRX7217649.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling