Job ID = 14521214 SRX = SRX10468512 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4904278 spots for SRR14094823/SRR14094823.sra Written 4904278 spots for SRR14094823/SRR14094823.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: 00:02:57 4904278 reads; of these: 4904278 (100.00%) were paired; of these: 408177 (8.32%) aligned concordantly 0 times 3901797 (79.56%) aligned concordantly exactly 1 time 594304 (12.12%) aligned concordantly >1 times ---- 408177 pairs aligned concordantly 0 times; of these: 82516 (20.22%) aligned discordantly 1 time ---- 325661 pairs aligned 0 times concordantly or discordantly; of these: 651322 mates make up the pairs; of these: 545282 (83.72%) aligned 0 times 65631 (10.08%) aligned exactly 1 time 40409 (6.20%) aligned >1 times 94.44% overall alignment rate Time searching: 00:02:57 Overall time: 00:02:57 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] 123496 / 4519321 = 0.0273 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 20:43:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.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 20:43:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:43:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:43:14: 1000000 INFO @ Sat, 15 Jan 2022 20:43:19: 2000000 INFO @ Sat, 15 Jan 2022 20:43:24: 3000000 INFO @ Sat, 15 Jan 2022 20:43:29: 4000000 INFO @ Sat, 15 Jan 2022 20:43:35: 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 20:43:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.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 20:43:39: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:43:39: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:43:40: 6000000 INFO @ Sat, 15 Jan 2022 20:43:44: 1000000 INFO @ Sat, 15 Jan 2022 20:43:45: 7000000 INFO @ Sat, 15 Jan 2022 20:43:50: 2000000 INFO @ Sat, 15 Jan 2022 20:43:51: 8000000 INFO @ Sat, 15 Jan 2022 20:43:55: 3000000 INFO @ Sat, 15 Jan 2022 20:43:56: 9000000 INFO @ Sat, 15 Jan 2022 20:43:56: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:43:56: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:43:56: #1 total tags in treatment: 4373027 INFO @ Sat, 15 Jan 2022 20:43:56: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:43:56: #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 20:43:56: #1 tags after filtering in treatment: 3721178 INFO @ Sat, 15 Jan 2022 20:43:56: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 20:43:56: #1 finished! INFO @ Sat, 15 Jan 2022 20:43:56: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:43:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:43:57: #2 number of paired peaks: 33 WARNING @ Sat, 15 Jan 2022 20:43:57: Too few paired peaks (33) 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 20:43:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.05_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/SRX10468512/SRX10468512.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:44:01: 4000000 INFO @ Sat, 15 Jan 2022 20:44:06: 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 20:44:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.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 20:44:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 20:44:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 20:44:11: 6000000 INFO @ Sat, 15 Jan 2022 20:44:14: 1000000 INFO @ Sat, 15 Jan 2022 20:44:17: 7000000 INFO @ Sat, 15 Jan 2022 20:44:19: 2000000 INFO @ Sat, 15 Jan 2022 20:44:23: 8000000 INFO @ Sat, 15 Jan 2022 20:44:24: 3000000 INFO @ Sat, 15 Jan 2022 20:44:28: 9000000 INFO @ Sat, 15 Jan 2022 20:44:29: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:44:29: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:44:29: #1 total tags in treatment: 4373027 INFO @ Sat, 15 Jan 2022 20:44:29: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:44:29: #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 20:44:29: 4000000 INFO @ Sat, 15 Jan 2022 20:44:29: #1 tags after filtering in treatment: 3721178 INFO @ Sat, 15 Jan 2022 20:44:29: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 20:44:29: #1 finished! INFO @ Sat, 15 Jan 2022 20:44:29: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:44:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:44:29: #2 number of paired peaks: 33 WARNING @ Sat, 15 Jan 2022 20:44:29: Too few paired peaks (33) 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 20:44:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.10_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/SRX10468512/SRX10468512.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 20:44:33: 5000000 INFO @ Sat, 15 Jan 2022 20:44:38: 6000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 20:44:42: 7000000 INFO @ Sat, 15 Jan 2022 20:44:47: 8000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 20:44:51: 9000000 INFO @ Sat, 15 Jan 2022 20:44:51: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 20:44:51: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 20:44:51: #1 total tags in treatment: 4373027 INFO @ Sat, 15 Jan 2022 20:44:51: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 20:44:51: #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 20:44:51: #1 tags after filtering in treatment: 3721178 INFO @ Sat, 15 Jan 2022 20:44:51: #1 Redundant rate of treatment: 0.15 INFO @ Sat, 15 Jan 2022 20:44:51: #1 finished! INFO @ Sat, 15 Jan 2022 20:44:51: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 20:44:51: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 20:44:52: #2 number of paired peaks: 33 WARNING @ Sat, 15 Jan 2022 20:44:52: Too few paired peaks (33) 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 20:44:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.20_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/SRX10468512/SRX10468512.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX10468512/SRX10468512.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling