Job ID = 14521714 SRX = ERX4439624 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4080689 spots for ERR4501553/ERR4501553.sra Written 4080689 spots for ERR4501553/ERR4501553.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: 00:03:24 4080689 reads; of these: 4080689 (100.00%) were paired; of these: 1246330 (30.54%) aligned concordantly 0 times 2357794 (57.78%) aligned concordantly exactly 1 time 476565 (11.68%) aligned concordantly >1 times ---- 1246330 pairs aligned concordantly 0 times; of these: 584669 (46.91%) aligned discordantly 1 time ---- 661661 pairs aligned 0 times concordantly or discordantly; of these: 1323322 mates make up the pairs; of these: 996069 (75.27%) aligned 0 times 78084 (5.90%) aligned exactly 1 time 249169 (18.83%) aligned >1 times 87.80% overall alignment rate Time searching: 00:03:24 Overall time: 00:03:24 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_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] 64282 / 3378973 = 0.0190 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 21:38:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.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 21:38:47: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:38:47: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:38:54: 1000000 INFO @ Sat, 15 Jan 2022 21:39:00: 2000000 INFO @ Sat, 15 Jan 2022 21:39:07: 3000000 INFO @ Sat, 15 Jan 2022 21:39:13: 4000000 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 21:39:17: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.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 21:39:17: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:39:17: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:39:20: 5000000 INFO @ Sat, 15 Jan 2022 21:39:25: 1000000 INFO @ Sat, 15 Jan 2022 21:39:27: 6000000 INFO @ Sat, 15 Jan 2022 21:39:32: 2000000 INFO @ Sat, 15 Jan 2022 21:39:34: 7000000 INFO @ Sat, 15 Jan 2022 21:39:34: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:39:34: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:39:34: #1 total tags in treatment: 2780871 INFO @ Sat, 15 Jan 2022 21:39:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:39:34: #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 21:39:34: #1 tags after filtering in treatment: 2377254 INFO @ Sat, 15 Jan 2022 21:39:34: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 21:39:34: #1 finished! INFO @ Sat, 15 Jan 2022 21:39:34: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:39:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:39:34: #2 number of paired peaks: 55 WARNING @ Sat, 15 Jan 2022 21:39:34: Too few paired peaks (55) 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 21:39:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.05_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/ERX4439624/ERX4439624.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:39:40: 3000000 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 21:39:47: 4000000 INFO @ Sat, 15 Jan 2022 21:39:47: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.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 21:39:47: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:39:47: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:39:54: 1000000 INFO @ Sat, 15 Jan 2022 21:39:55: 5000000 INFO @ Sat, 15 Jan 2022 21:40:01: 2000000 INFO @ Sat, 15 Jan 2022 21:40:03: 6000000 INFO @ Sat, 15 Jan 2022 21:40:08: 3000000 INFO @ Sat, 15 Jan 2022 21:40:11: 7000000 INFO @ Sat, 15 Jan 2022 21:40:11: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:40:11: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:40:11: #1 total tags in treatment: 2780871 INFO @ Sat, 15 Jan 2022 21:40:11: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:40:11: #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 21:40:11: #1 tags after filtering in treatment: 2377254 INFO @ Sat, 15 Jan 2022 21:40:11: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 21:40:11: #1 finished! INFO @ Sat, 15 Jan 2022 21:40:11: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:40:11: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:40:12: #2 number of paired peaks: 55 WARNING @ Sat, 15 Jan 2022 21:40:12: Too few paired peaks (55) 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 21:40:12: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.10_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/ERX4439624/ERX4439624.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:40:14: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:40:21: 5000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:40:27: 6000000 INFO @ Sat, 15 Jan 2022 21:40:33: 7000000 INFO @ Sat, 15 Jan 2022 21:40:34: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:40:34: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:40:34: #1 total tags in treatment: 2780871 INFO @ Sat, 15 Jan 2022 21:40:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:40:34: #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 21:40:34: #1 tags after filtering in treatment: 2377254 INFO @ Sat, 15 Jan 2022 21:40:34: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 21:40:34: #1 finished! INFO @ Sat, 15 Jan 2022 21:40:34: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:40:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:40:34: #2 number of paired peaks: 55 WARNING @ Sat, 15 Jan 2022 21:40:34: Too few paired peaks (55) 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 21:40:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.20_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/ERX4439624/ERX4439624.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439624/ERX4439624.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling