Job ID = 14520604 SRX = SRX3659092 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3543880 spots for SRR6682808/SRR6682808.sra Written 3543880 spots for SRR6682808/SRR6682808.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: 00:03:12 3543880 reads; of these: 3543880 (100.00%) were paired; of these: 453533 (12.80%) aligned concordantly 0 times 2578536 (72.76%) aligned concordantly exactly 1 time 511811 (14.44%) aligned concordantly >1 times ---- 453533 pairs aligned concordantly 0 times; of these: 60355 (13.31%) aligned discordantly 1 time ---- 393178 pairs aligned 0 times concordantly or discordantly; of these: 786356 mates make up the pairs; of these: 713593 (90.75%) aligned 0 times 37403 (4.76%) aligned exactly 1 time 35360 (4.50%) aligned >1 times 89.93% overall alignment rate Time searching: 00:03:12 Overall time: 00:03:12 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] 103235 / 3146021 = 0.0328 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 19:34:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.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 19:34:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:34:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:34:20: 1000000 INFO @ Sat, 15 Jan 2022 19:34:28: 2000000 INFO @ Sat, 15 Jan 2022 19:34:35: 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 19:34:42: 4000000 INFO @ Sat, 15 Jan 2022 19:34:43: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.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 19:34:43: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:34:43: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:34:50: 5000000 INFO @ Sat, 15 Jan 2022 19:34:51: 1000000 INFO @ Sat, 15 Jan 2022 19:34:58: 6000000 INFO @ Sat, 15 Jan 2022 19:34:59: 2000000 INFO @ Sat, 15 Jan 2022 19:34:59: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:34:59: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:34:59: #1 total tags in treatment: 2987765 INFO @ Sat, 15 Jan 2022 19:34:59: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:34:59: #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 19:34:59: #1 tags after filtering in treatment: 2486377 INFO @ Sat, 15 Jan 2022 19:34:59: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 19:34:59: #1 finished! INFO @ Sat, 15 Jan 2022 19:34:59: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:34:59: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:34:59: #2 number of paired peaks: 49 WARNING @ Sat, 15 Jan 2022 19:34:59: Too few paired peaks (49) 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 19:34:59: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.05_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/SRX3659092/SRX3659092.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:35:06: 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 19:35:13: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.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 19:35:13: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:35:13: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:35:14: 4000000 INFO @ Sat, 15 Jan 2022 19:35:21: 1000000 INFO @ Sat, 15 Jan 2022 19:35:21: 5000000 INFO @ Sat, 15 Jan 2022 19:35:29: 2000000 INFO @ Sat, 15 Jan 2022 19:35:29: 6000000 INFO @ Sat, 15 Jan 2022 19:35:31: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:35:31: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:35:31: #1 total tags in treatment: 2987765 INFO @ Sat, 15 Jan 2022 19:35:31: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:35:31: #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 19:35:31: #1 tags after filtering in treatment: 2486377 INFO @ Sat, 15 Jan 2022 19:35:31: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 19:35:31: #1 finished! INFO @ Sat, 15 Jan 2022 19:35:31: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:35:31: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:35:31: #2 number of paired peaks: 49 WARNING @ Sat, 15 Jan 2022 19:35:31: Too few paired peaks (49) 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 19:35:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.10_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 30 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:35:37: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 19:35:44: 4000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:35:52: 5000000 INFO @ Sat, 15 Jan 2022 19:36:00: 6000000 INFO @ Sat, 15 Jan 2022 19:36:01: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 19:36:01: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 19:36:01: #1 total tags in treatment: 2987765 INFO @ Sat, 15 Jan 2022 19:36:01: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:36:01: #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 19:36:01: #1 tags after filtering in treatment: 2486377 INFO @ Sat, 15 Jan 2022 19:36:01: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 19:36:01: #1 finished! INFO @ Sat, 15 Jan 2022 19:36:01: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:36:01: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:36:01: #2 number of paired peaks: 49 WARNING @ Sat, 15 Jan 2022 19:36:01: Too few paired peaks (49) 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 19:36:01: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 314 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX3659092/SRX3659092.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling