Job ID = 14521905 SRX = ERX4439586 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3445472 spots for ERR4501515/ERR4501515.sra Written 3445472 spots for ERR4501515/ERR4501515.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: 00:04:06 3445472 reads; of these: 3445472 (100.00%) were paired; of these: 920295 (26.71%) aligned concordantly 0 times 2198737 (63.82%) aligned concordantly exactly 1 time 326440 (9.47%) aligned concordantly >1 times ---- 920295 pairs aligned concordantly 0 times; of these: 428465 (46.56%) aligned discordantly 1 time ---- 491830 pairs aligned 0 times concordantly or discordantly; of these: 983660 mates make up the pairs; of these: 790423 (80.36%) aligned 0 times 59009 (6.00%) aligned exactly 1 time 134228 (13.65%) aligned >1 times 88.53% overall alignment rate Time searching: 00:04:06 Overall time: 00:04:06 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] 42012 / 2924558 = 0.0144 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 21:58:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.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 21:58:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:58:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:58:47: 1000000 INFO @ Sat, 15 Jan 2022 21:58:53: 2000000 INFO @ Sat, 15 Jan 2022 21:59:00: 3000000 INFO @ Sat, 15 Jan 2022 21:59:07: 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 21:59:10: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.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 21:59:10: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:59:10: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:59:13: 5000000 INFO @ Sat, 15 Jan 2022 21:59:19: 1000000 INFO @ Sat, 15 Jan 2022 21:59:20: 6000000 INFO @ Sat, 15 Jan 2022 21:59:20: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:59:20: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:59:20: #1 total tags in treatment: 2489789 INFO @ Sat, 15 Jan 2022 21:59:20: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:59:20: #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 21:59:20: #1 tags after filtering in treatment: 2216187 INFO @ Sat, 15 Jan 2022 21:59:20: #1 Redundant rate of treatment: 0.11 INFO @ Sat, 15 Jan 2022 21:59:20: #1 finished! INFO @ Sat, 15 Jan 2022 21:59:20: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:59:20: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:59:20: #2 number of paired peaks: 93 WARNING @ Sat, 15 Jan 2022 21:59:20: Too few paired peaks (93) 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 21:59:20: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.05_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/ERX4439586/ERX4439586.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:59:28: 2000000 INFO @ Sat, 15 Jan 2022 21:59:35: 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 21:59:40: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.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 21:59:40: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:59:40: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:59:44: 4000000 INFO @ Sat, 15 Jan 2022 21:59:47: 1000000 INFO @ Sat, 15 Jan 2022 21:59:51: 5000000 INFO @ Sat, 15 Jan 2022 21:59:55: 2000000 INFO @ Sat, 15 Jan 2022 21:59:59: 6000000 INFO @ Sat, 15 Jan 2022 21:59:59: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:59:59: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:59:59: #1 total tags in treatment: 2489789 INFO @ Sat, 15 Jan 2022 21:59:59: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:59:59: #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 21:59:59: #1 tags after filtering in treatment: 2216187 INFO @ Sat, 15 Jan 2022 21:59:59: #1 Redundant rate of treatment: 0.11 INFO @ Sat, 15 Jan 2022 21:59:59: #1 finished! INFO @ Sat, 15 Jan 2022 21:59:59: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:59:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:00:00: #2 number of paired peaks: 93 WARNING @ Sat, 15 Jan 2022 22:00:00: Too few paired peaks (93) 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 22:00:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.10_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/ERX4439586/ERX4439586.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:00:02: 3000000 INFO @ Sat, 15 Jan 2022 22:00:10: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:00:17: 5000000 INFO @ Sat, 15 Jan 2022 22:00:23: 6000000 INFO @ Sat, 15 Jan 2022 22:00:23: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 22:00:23: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 22:00:23: #1 total tags in treatment: 2489789 INFO @ Sat, 15 Jan 2022 22:00:23: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:00:23: #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 22:00:24: #1 tags after filtering in treatment: 2216187 INFO @ Sat, 15 Jan 2022 22:00:24: #1 Redundant rate of treatment: 0.11 INFO @ Sat, 15 Jan 2022 22:00:24: #1 finished! INFO @ Sat, 15 Jan 2022 22:00:24: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:00:24: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:00:24: #2 number of paired peaks: 93 WARNING @ Sat, 15 Jan 2022 22:00:24: Too few paired peaks (93) 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 22:00:24: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.20_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/ERX4439586/ERX4439586.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439586/ERX4439586.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。