Job ID = 14520439 SRX = SRX11781144 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:06:21 prefetch.2.10.7: 1) Downloading 'SRR15481087'... 2022-01-15T10:06:21 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:06:40 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:06:41 prefetch.2.10.7: 'SRR15481087' is valid 2022-01-15T10:06:41 prefetch.2.10.7: 1) 'SRR15481087' was downloaded successfully 2022-01-15T10:06:41 prefetch.2.10.7: 'SRR15481087' has 0 unresolved dependencies Read 8305974 spots for SRR15481087/SRR15481087.sra Written 8305974 spots for SRR15481087/SRR15481087.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: 00:04:34 8305974 reads; of these: 8305974 (100.00%) were paired; of these: 5191412 (62.50%) aligned concordantly 0 times 2335590 (28.12%) aligned concordantly exactly 1 time 778972 (9.38%) aligned concordantly >1 times ---- 5191412 pairs aligned concordantly 0 times; of these: 18361 (0.35%) aligned discordantly 1 time ---- 5173051 pairs aligned 0 times concordantly or discordantly; of these: 10346102 mates make up the pairs; of these: 6011418 (58.10%) aligned 0 times 3274077 (31.65%) aligned exactly 1 time 1060607 (10.25%) aligned >1 times 63.81% overall alignment rate Time searching: 00:04:34 Overall time: 00:04:34 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] 190477 / 3131924 = 0.0608 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 19:14:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.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 19:14:35: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:14:35: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:14:41: 1000000 INFO @ Sat, 15 Jan 2022 19:14:46: 2000000 INFO @ Sat, 15 Jan 2022 19:14:51: 3000000 INFO @ Sat, 15 Jan 2022 19:14:56: 4000000 INFO @ Sat, 15 Jan 2022 19:15:02: 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 19:15:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.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 19:15:05: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:15:05: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:15:07: 6000000 INFO @ Sat, 15 Jan 2022 19:15:11: 1000000 INFO @ Sat, 15 Jan 2022 19:15:12: 7000000 INFO @ Sat, 15 Jan 2022 19:15:17: 2000000 INFO @ Sat, 15 Jan 2022 19:15:18: 8000000 INFO @ Sat, 15 Jan 2022 19:15:22: 3000000 INFO @ Sat, 15 Jan 2022 19:15:23: 9000000 INFO @ Sat, 15 Jan 2022 19:15:28: 4000000 INFO @ Sat, 15 Jan 2022 19:15:29: 10000000 INFO @ Sat, 15 Jan 2022 19:15:30: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:15:30: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:15:30: #1 total tags in treatment: 2924655 INFO @ Sat, 15 Jan 2022 19:15:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:15:30: #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 19:15:30: #1 tags after filtering in treatment: 2211428 INFO @ Sat, 15 Jan 2022 19:15:30: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 19:15:30: #1 finished! INFO @ Sat, 15 Jan 2022 19:15:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:15:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:15:30: #2 number of paired peaks: 40 WARNING @ Sat, 15 Jan 2022 19:15:30: 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 19:15:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.05_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/SRX11781144/SRX11781144.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:15:33: 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 19:15:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.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 19:15:35: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:15:35: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:15:38: 6000000 INFO @ Sat, 15 Jan 2022 19:15:40: 1000000 INFO @ Sat, 15 Jan 2022 19:15:44: 7000000 INFO @ Sat, 15 Jan 2022 19:15:45: 2000000 INFO @ Sat, 15 Jan 2022 19:15:49: 8000000 INFO @ Sat, 15 Jan 2022 19:15:50: 3000000 INFO @ Sat, 15 Jan 2022 19:15:55: 9000000 INFO @ Sat, 15 Jan 2022 19:15:55: 4000000 INFO @ Sat, 15 Jan 2022 19:16:00: 5000000 INFO @ Sat, 15 Jan 2022 19:16:00: 10000000 INFO @ Sat, 15 Jan 2022 19:16:01: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:16:01: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:16:01: #1 total tags in treatment: 2924655 INFO @ Sat, 15 Jan 2022 19:16:01: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:16:01: #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 19:16:01: #1 tags after filtering in treatment: 2211428 INFO @ Sat, 15 Jan 2022 19:16:01: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 19:16:01: #1 finished! INFO @ Sat, 15 Jan 2022 19:16:01: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:16:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:16:02: #2 number of paired peaks: 40 WARNING @ Sat, 15 Jan 2022 19:16:02: 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 19:16:02: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.10_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/SRX11781144/SRX11781144.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:16:04: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:16:09: 7000000 INFO @ Sat, 15 Jan 2022 19:16:13: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:16:18: 9000000 INFO @ Sat, 15 Jan 2022 19:16:22: 10000000 INFO @ Sat, 15 Jan 2022 19:16:23: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 19:16:23: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 19:16:23: #1 total tags in treatment: 2924655 INFO @ Sat, 15 Jan 2022 19:16:23: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:16:23: #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 19:16:23: #1 tags after filtering in treatment: 2211428 INFO @ Sat, 15 Jan 2022 19:16:23: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 19:16:23: #1 finished! INFO @ Sat, 15 Jan 2022 19:16:23: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:16:23: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:16:23: #2 number of paired peaks: 40 WARNING @ Sat, 15 Jan 2022 19:16:23: 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 19:16:23: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.20_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/SRX11781144/SRX11781144.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781144/SRX11781144.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling