Job ID = 14519859 SRX = SRX8829410 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 24883470 spots for SRR12329190/SRR12329190.sra Written 24883470 spots for SRR12329190/SRR12329190.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: 00:24:55 24883470 reads; of these: 24883470 (100.00%) were paired; of these: 2702783 (10.86%) aligned concordantly 0 times 12634819 (50.78%) aligned concordantly exactly 1 time 9545868 (38.36%) aligned concordantly >1 times ---- 2702783 pairs aligned concordantly 0 times; of these: 142261 (5.26%) aligned discordantly 1 time ---- 2560522 pairs aligned 0 times concordantly or discordantly; of these: 5121044 mates make up the pairs; of these: 3390337 (66.20%) aligned 0 times 823381 (16.08%) aligned exactly 1 time 907326 (17.72%) aligned >1 times 93.19% overall alignment rate Time searching: 00:24:55 Overall time: 00:24:55 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 20 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] 17808344 / 22284333 = 0.7991 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/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 18:38:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.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 @ Sat, 15 Jan 2022 18:38:41: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:38:41: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:38:49: 1000000 INFO @ Sat, 15 Jan 2022 18:38:57: 2000000 INFO @ Sat, 15 Jan 2022 18:39:05: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 18:39:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.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 @ Sat, 15 Jan 2022 18:39:11: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:39:11: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:39:14: 4000000 INFO @ Sat, 15 Jan 2022 18:39:20: 1000000 INFO @ Sat, 15 Jan 2022 18:39:23: 5000000 INFO @ Sat, 15 Jan 2022 18:39:29: 2000000 INFO @ Sat, 15 Jan 2022 18:39:32: 6000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.3/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 15 Jan 2022 18:39:39: 3000000 INFO @ Sat, 15 Jan 2022 18:39:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.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 @ Sat, 15 Jan 2022 18:39:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:39:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:39:41: 7000000 INFO @ Sat, 15 Jan 2022 18:39:47: 4000000 INFO @ Sat, 15 Jan 2022 18:39:48: 8000000 INFO @ Sat, 15 Jan 2022 18:39:48: 1000000 INFO @ Sat, 15 Jan 2022 18:39:54: 5000000 INFO @ Sat, 15 Jan 2022 18:39:55: 2000000 INFO @ Sat, 15 Jan 2022 18:39:56: 9000000 INFO @ Sat, 15 Jan 2022 18:40:02: 6000000 INFO @ Sat, 15 Jan 2022 18:40:03: 3000000 INFO @ Sat, 15 Jan 2022 18:40:04: 10000000 INFO @ Sat, 15 Jan 2022 18:40:09: 7000000 INFO @ Sat, 15 Jan 2022 18:40:10: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 18:40:10: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 18:40:10: #1 total tags in treatment: 4430370 INFO @ Sat, 15 Jan 2022 18:40:10: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:40:10: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 18:40:10: #1 tags after filtering in treatment: 2577605 INFO @ Sat, 15 Jan 2022 18:40:10: #1 Redundant rate of treatment: 0.42 INFO @ Sat, 15 Jan 2022 18:40:10: #1 finished! INFO @ Sat, 15 Jan 2022 18:40:10: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:40:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:40:10: 4000000 INFO @ Sat, 15 Jan 2022 18:40:10: #2 number of paired peaks: 40 WARNING @ Sat, 15 Jan 2022 18:40:10: Too few paired peaks (40) 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 @ Sat, 15 Jan 2022 18:40:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.05_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/SRX8829410/SRX8829410.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:40:17: 8000000 INFO @ Sat, 15 Jan 2022 18:40:17: 5000000 INFO @ Sat, 15 Jan 2022 18:40:24: 6000000 INFO @ Sat, 15 Jan 2022 18:40:26: 9000000 INFO @ Sat, 15 Jan 2022 18:40:32: 7000000 INFO @ Sat, 15 Jan 2022 18:40:34: 10000000 INFO @ Sat, 15 Jan 2022 18:40:40: 8000000 INFO @ Sat, 15 Jan 2022 18:40:41: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 18:40:41: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 18:40:41: #1 total tags in treatment: 4430370 INFO @ Sat, 15 Jan 2022 18:40:41: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:40:41: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 18:40:41: #1 tags after filtering in treatment: 2577605 INFO @ Sat, 15 Jan 2022 18:40:41: #1 Redundant rate of treatment: 0.42 INFO @ Sat, 15 Jan 2022 18:40:41: #1 finished! INFO @ Sat, 15 Jan 2022 18:40:41: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:40:41: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:40:41: #2 number of paired peaks: 40 WARNING @ Sat, 15 Jan 2022 18:40:41: Too few paired peaks (40) 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 @ Sat, 15 Jan 2022 18:40:41: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.10_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/SRX8829410/SRX8829410.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:40:47: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:41:04: 10000000 INFO @ Sat, 15 Jan 2022 18:41:12: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 18:41:12: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 18:41:12: #1 total tags in treatment: 4430370 INFO @ Sat, 15 Jan 2022 18:41:12: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:41:12: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 15 Jan 2022 18:41:13: #1 tags after filtering in treatment: 2577605 INFO @ Sat, 15 Jan 2022 18:41:13: #1 Redundant rate of treatment: 0.42 INFO @ Sat, 15 Jan 2022 18:41:13: #1 finished! INFO @ Sat, 15 Jan 2022 18:41:13: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:41:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:41:13: #2 number of paired peaks: 40 WARNING @ Sat, 15 Jan 2022 18:41:13: Too few paired peaks (40) 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 @ Sat, 15 Jan 2022 18:41:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8829410/SRX8829410.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling