Job ID = 7107920 SRX = SRX7217642 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 9713830 spots for SRR10533719/SRR10533719.sra Written 9713830 spots for SRR10533719/SRR10533719.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: 00:12:35 9713830 reads; of these: 9713830 (100.00%) were paired; of these: 3761619 (38.72%) aligned concordantly 0 times 4999652 (51.47%) aligned concordantly exactly 1 time 952559 (9.81%) aligned concordantly >1 times ---- 3761619 pairs aligned concordantly 0 times; of these: 1551040 (41.23%) aligned discordantly 1 time ---- 2210579 pairs aligned 0 times concordantly or discordantly; of these: 4421158 mates make up the pairs; of these: 3584769 (81.08%) aligned 0 times 236579 (5.35%) aligned exactly 1 time 599810 (13.57%) aligned >1 times 81.55% overall alignment rate Time searching: 00:12:35 Overall time: 00:12:35 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] 825789 / 7397215 = 0.1116 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 13:34:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.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 13:34:43: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:34:43: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:34:53: 1000000 INFO @ Wed, 22 Jul 2020 13:35:01: 2000000 INFO @ Wed, 22 Jul 2020 13:35:10: 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 13:35:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.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 13:35:13: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:35:13: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:35:23: 1000000 INFO @ Wed, 22 Jul 2020 13:35:24: 4000000 INFO @ Wed, 22 Jul 2020 13:35:33: 2000000 INFO @ Wed, 22 Jul 2020 13:35:35: 5000000 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 13:35:43: 3000000 INFO @ Wed, 22 Jul 2020 13:35:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.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 13:35:43: #1 read tag files... INFO @ Wed, 22 Jul 2020 13:35:43: #1 read treatment tags... INFO @ Wed, 22 Jul 2020 13:35:45: 6000000 INFO @ Wed, 22 Jul 2020 13:35:54: 1000000 INFO @ Wed, 22 Jul 2020 13:35:54: 4000000 INFO @ Wed, 22 Jul 2020 13:35:56: 7000000 INFO @ Wed, 22 Jul 2020 13:36:05: 2000000 INFO @ Wed, 22 Jul 2020 13:36:06: 5000000 INFO @ Wed, 22 Jul 2020 13:36:07: 8000000 INFO @ Wed, 22 Jul 2020 13:36:16: 3000000 INFO @ Wed, 22 Jul 2020 13:36:17: 6000000 INFO @ Wed, 22 Jul 2020 13:36:17: 9000000 INFO @ Wed, 22 Jul 2020 13:36:27: 4000000 INFO @ Wed, 22 Jul 2020 13:36:27: 10000000 INFO @ Wed, 22 Jul 2020 13:36:28: 7000000 INFO @ Wed, 22 Jul 2020 13:36:37: 5000000 INFO @ Wed, 22 Jul 2020 13:36:38: 8000000 INFO @ Wed, 22 Jul 2020 13:36:38: 11000000 INFO @ Wed, 22 Jul 2020 13:36:47: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Wed, 22 Jul 2020 13:36:49: 9000000 INFO @ Wed, 22 Jul 2020 13:36:49: 12000000 INFO @ Wed, 22 Jul 2020 13:36:58: 7000000 INFO @ Wed, 22 Jul 2020 13:36:59: 10000000 BigWig に変換しました。 INFO @ Wed, 22 Jul 2020 13:37:00: 13000000 INFO @ Wed, 22 Jul 2020 13:37:09: 8000000 INFO @ Wed, 22 Jul 2020 13:37:11: 11000000 INFO @ Wed, 22 Jul 2020 13:37:12: 14000000 INFO @ Wed, 22 Jul 2020 13:37:13: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:37:13: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:37:13: #1 total tags in treatment: 5260772 INFO @ Wed, 22 Jul 2020 13:37:13: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:37:13: #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 13:37:14: #1 tags after filtering in treatment: 4281194 INFO @ Wed, 22 Jul 2020 13:37:14: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 22 Jul 2020 13:37:14: #1 finished! INFO @ Wed, 22 Jul 2020 13:37:14: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:37:14: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:37:14: #2 number of paired peaks: 29 WARNING @ Wed, 22 Jul 2020 13:37:14: Too few paired peaks (29) 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 13:37:14: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.05_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/SRX7217642/SRX7217642.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:37:21: 9000000 INFO @ Wed, 22 Jul 2020 13:37:22: 12000000 INFO @ Wed, 22 Jul 2020 13:37:31: 10000000 INFO @ Wed, 22 Jul 2020 13:37:33: 13000000 INFO @ Wed, 22 Jul 2020 13:37:41: 11000000 INFO @ Wed, 22 Jul 2020 13:37:44: 14000000 INFO @ Wed, 22 Jul 2020 13:37:46: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:37:46: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:37:46: #1 total tags in treatment: 5260772 INFO @ Wed, 22 Jul 2020 13:37:46: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:37:46: #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 13:37:46: #1 tags after filtering in treatment: 4281194 INFO @ Wed, 22 Jul 2020 13:37:46: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 22 Jul 2020 13:37:46: #1 finished! INFO @ Wed, 22 Jul 2020 13:37:46: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:37:46: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:37:47: #2 number of paired peaks: 29 WARNING @ Wed, 22 Jul 2020 13:37:47: Too few paired peaks (29) 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 13:37:47: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.10_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/SRX7217642/SRX7217642.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Wed, 22 Jul 2020 13:37:50: 12000000 INFO @ Wed, 22 Jul 2020 13:37:58: 13000000 INFO @ Wed, 22 Jul 2020 13:38:07: 14000000 INFO @ Wed, 22 Jul 2020 13:38:09: #1 tag size is determined as 150 bps INFO @ Wed, 22 Jul 2020 13:38:09: #1 tag size = 150 INFO @ Wed, 22 Jul 2020 13:38:09: #1 total tags in treatment: 5260772 INFO @ Wed, 22 Jul 2020 13:38:09: #1 user defined the maximum tags... INFO @ Wed, 22 Jul 2020 13:38:09: #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 13:38:09: #1 tags after filtering in treatment: 4281194 INFO @ Wed, 22 Jul 2020 13:38:09: #1 Redundant rate of treatment: 0.19 INFO @ Wed, 22 Jul 2020 13:38:09: #1 finished! INFO @ Wed, 22 Jul 2020 13:38:09: #2 Build Peak Model... INFO @ Wed, 22 Jul 2020 13:38:09: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 22 Jul 2020 13:38:09: #2 number of paired peaks: 29 WARNING @ Wed, 22 Jul 2020 13:38:09: Too few paired peaks (29) 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 13:38:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.20_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/SRX7217642/SRX7217642.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7217642/SRX7217642.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling