Job ID = 14521462 SRX = SRX10828596 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6193315 spots for SRR14480421/SRR14480421.sra Written 6193315 spots for SRR14480421/SRR14480421.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: 00:04:44 6193315 reads; of these: 6193315 (100.00%) were paired; of these: 578778 (9.35%) aligned concordantly 0 times 4759209 (76.84%) aligned concordantly exactly 1 time 855328 (13.81%) aligned concordantly >1 times ---- 578778 pairs aligned concordantly 0 times; of these: 154414 (26.68%) aligned discordantly 1 time ---- 424364 pairs aligned 0 times concordantly or discordantly; of these: 848728 mates make up the pairs; of these: 620926 (73.16%) aligned 0 times 151165 (17.81%) aligned exactly 1 time 76637 (9.03%) aligned >1 times 94.99% overall alignment rate Time searching: 00:04:44 Overall time: 00:04:44 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 8 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] 876247 / 5683743 = 0.1542 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 21:09:25: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.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 21:09:25: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:09:25: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:09:30: 1000000 INFO @ Sat, 15 Jan 2022 21:09:35: 2000000 INFO @ Sat, 15 Jan 2022 21:09:39: 3000000 INFO @ Sat, 15 Jan 2022 21:09:44: 4000000 INFO @ Sat, 15 Jan 2022 21:09:49: 5000000 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 21:09:54: 6000000 INFO @ Sat, 15 Jan 2022 21:09:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.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 21:09:55: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:09:55: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:10:00: 7000000 INFO @ Sat, 15 Jan 2022 21:10:00: 1000000 INFO @ Sat, 15 Jan 2022 21:10:05: 2000000 INFO @ Sat, 15 Jan 2022 21:10:06: 8000000 INFO @ Sat, 15 Jan 2022 21:10:10: 3000000 INFO @ Sat, 15 Jan 2022 21:10:11: 9000000 INFO @ Sat, 15 Jan 2022 21:10:15: 4000000 INFO @ Sat, 15 Jan 2022 21:10:17: 10000000 INFO @ Sat, 15 Jan 2022 21:10:17: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:10:17: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:10:17: #1 total tags in treatment: 4742463 INFO @ Sat, 15 Jan 2022 21:10:17: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:10:17: #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 21:10:17: #1 tags after filtering in treatment: 3127497 INFO @ Sat, 15 Jan 2022 21:10:17: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:10:17: #1 finished! INFO @ Sat, 15 Jan 2022 21:10:17: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:10:17: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:10:18: #2 number of paired peaks: 5 WARNING @ Sat, 15 Jan 2022 21:10:18: Too few paired peaks (5) 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 21:10:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.05_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/SRX10828596/SRX10828596.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:10:19: 5000000 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 21:10:24: 6000000 INFO @ Sat, 15 Jan 2022 21:10:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.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 21:10:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:10:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:10:29: 7000000 INFO @ Sat, 15 Jan 2022 21:10:31: 1000000 INFO @ Sat, 15 Jan 2022 21:10:33: 8000000 INFO @ Sat, 15 Jan 2022 21:10:37: 2000000 INFO @ Sat, 15 Jan 2022 21:10:38: 9000000 INFO @ Sat, 15 Jan 2022 21:10:43: 3000000 INFO @ Sat, 15 Jan 2022 21:10:43: 10000000 INFO @ Sat, 15 Jan 2022 21:10:43: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:10:43: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:10:43: #1 total tags in treatment: 4742463 INFO @ Sat, 15 Jan 2022 21:10:43: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:10:43: #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 21:10:44: #1 tags after filtering in treatment: 3127497 INFO @ Sat, 15 Jan 2022 21:10:44: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:10:44: #1 finished! INFO @ Sat, 15 Jan 2022 21:10:44: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:10:44: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:10:44: #2 number of paired peaks: 5 WARNING @ Sat, 15 Jan 2022 21:10:44: Too few paired peaks (5) 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 21:10:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.10_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/SRX10828596/SRX10828596.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:10:48: 4000000 INFO @ Sat, 15 Jan 2022 21:10:54: 5000000 INFO @ Sat, 15 Jan 2022 21:11:00: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:11:06: 7000000 INFO @ Sat, 15 Jan 2022 21:11:12: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:11:18: 9000000 INFO @ Sat, 15 Jan 2022 21:11:24: 10000000 INFO @ Sat, 15 Jan 2022 21:11:24: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 21:11:24: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 21:11:24: #1 total tags in treatment: 4742463 INFO @ Sat, 15 Jan 2022 21:11:24: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:11:24: #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 21:11:24: #1 tags after filtering in treatment: 3127497 INFO @ Sat, 15 Jan 2022 21:11:24: #1 Redundant rate of treatment: 0.34 INFO @ Sat, 15 Jan 2022 21:11:24: #1 finished! INFO @ Sat, 15 Jan 2022 21:11:24: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:11:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:11:25: #2 number of paired peaks: 5 WARNING @ Sat, 15 Jan 2022 21:11:25: Too few paired peaks (5) 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 21:11:25: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.20_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/SRX10828596/SRX10828596.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10828596/SRX10828596.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling