Job ID = 14520184 SRX = SRX7496387 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7121242 spots for SRR10822998/SRR10822998.sra Written 7121242 spots for SRR10822998/SRR10822998.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: 00:04:28 7121242 reads; of these: 7121242 (100.00%) were paired; of these: 4026588 (56.54%) aligned concordantly 0 times 2593386 (36.42%) aligned concordantly exactly 1 time 501268 (7.04%) aligned concordantly >1 times ---- 4026588 pairs aligned concordantly 0 times; of these: 34623 (0.86%) aligned discordantly 1 time ---- 3991965 pairs aligned 0 times concordantly or discordantly; of these: 7983930 mates make up the pairs; of these: 4733710 (59.29%) aligned 0 times 2723926 (34.12%) aligned exactly 1 time 526294 (6.59%) aligned >1 times 66.76% overall alignment rate Time searching: 00:04:28 Overall time: 00:04:28 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] 156808 / 3128710 = 0.0501 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 18:39:55: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.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 18:39:55: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:39:55: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:40:02: 1000000 INFO @ Sat, 15 Jan 2022 18:40:09: 2000000 INFO @ Sat, 15 Jan 2022 18:40:16: 3000000 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 18:40:23: 4000000 INFO @ Sat, 15 Jan 2022 18:40:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.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 18:40:23: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:40:24: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:40:30: 5000000 INFO @ Sat, 15 Jan 2022 18:40:30: 1000000 INFO @ Sat, 15 Jan 2022 18:40:36: 2000000 INFO @ Sat, 15 Jan 2022 18:40:37: 6000000 INFO @ Sat, 15 Jan 2022 18:40:43: 3000000 INFO @ Sat, 15 Jan 2022 18:40:44: 7000000 INFO @ Sat, 15 Jan 2022 18:40:49: 4000000 INFO @ Sat, 15 Jan 2022 18:40:50: 8000000 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 18:40:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.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 18:40:53: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:40:53: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:40:57: 5000000 INFO @ Sat, 15 Jan 2022 18:40:58: 9000000 INFO @ Sat, 15 Jan 2022 18:40:59: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 18:40:59: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 18:40:59: #1 total tags in treatment: 2938184 INFO @ Sat, 15 Jan 2022 18:40:59: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:40:59: #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 18:40:59: #1 tags after filtering in treatment: 2113839 INFO @ Sat, 15 Jan 2022 18:40:59: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 18:40:59: #1 finished! INFO @ Sat, 15 Jan 2022 18:40:59: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:40:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:40:59: #2 number of paired peaks: 25 WARNING @ Sat, 15 Jan 2022 18:40:59: Too few paired peaks (25) 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 18:40:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.05_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/SRX7496387/SRX7496387.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:41:00: 1000000 INFO @ Sat, 15 Jan 2022 18:41:04: 6000000 INFO @ Sat, 15 Jan 2022 18:41:06: 2000000 INFO @ Sat, 15 Jan 2022 18:41:10: 7000000 INFO @ Sat, 15 Jan 2022 18:41:11: 3000000 INFO @ Sat, 15 Jan 2022 18:41:17: 8000000 INFO @ Sat, 15 Jan 2022 18:41:18: 4000000 INFO @ Sat, 15 Jan 2022 18:41:24: 9000000 INFO @ Sat, 15 Jan 2022 18:41:25: 5000000 INFO @ Sat, 15 Jan 2022 18:41:26: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 18:41:26: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 18:41:26: #1 total tags in treatment: 2938184 INFO @ Sat, 15 Jan 2022 18:41:26: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:41:26: #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 18:41:26: #1 tags after filtering in treatment: 2113839 INFO @ Sat, 15 Jan 2022 18:41:26: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 18:41:26: #1 finished! INFO @ Sat, 15 Jan 2022 18:41:26: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:41:26: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:41:26: #2 number of paired peaks: 25 WARNING @ Sat, 15 Jan 2022 18:41:26: Too few paired peaks (25) 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 18:41:26: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.10_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/SRX7496387/SRX7496387.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:41:31: 6000000 INFO @ Sat, 15 Jan 2022 18:41:36: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:41:43: 8000000 INFO @ Sat, 15 Jan 2022 18:41:49: 9000000 INFO @ Sat, 15 Jan 2022 18:41:50: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 18:41:50: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 18:41:50: #1 total tags in treatment: 2938184 INFO @ Sat, 15 Jan 2022 18:41:50: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:41:50: #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 18:41:50: #1 tags after filtering in treatment: 2113839 INFO @ Sat, 15 Jan 2022 18:41:50: #1 Redundant rate of treatment: 0.28 INFO @ Sat, 15 Jan 2022 18:41:50: #1 finished! INFO @ Sat, 15 Jan 2022 18:41:50: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:41:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:41:50: #2 number of paired peaks: 25 WARNING @ Sat, 15 Jan 2022 18:41:50: Too few paired peaks (25) 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 18:41:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.20_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/SRX7496387/SRX7496387.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496387/SRX7496387.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。