Job ID = 14522058 SRX = SRX9067211 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4602804 spots for SRR12580364/SRR12580364.sra Written 4602804 spots for SRR12580364/SRR12580364.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: 00:01:56 4602804 reads; of these: 4602804 (100.00%) were paired; of these: 877204 (19.06%) aligned concordantly 0 times 3203874 (69.61%) aligned concordantly exactly 1 time 521726 (11.33%) aligned concordantly >1 times ---- 877204 pairs aligned concordantly 0 times; of these: 172671 (19.68%) aligned discordantly 1 time ---- 704533 pairs aligned 0 times concordantly or discordantly; of these: 1409066 mates make up the pairs; of these: 1059787 (75.21%) aligned 0 times 256264 (18.19%) aligned exactly 1 time 93015 (6.60%) aligned >1 times 88.49% overall alignment rate Time searching: 00:01:56 Overall time: 00:01:56 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] 396936 / 3778743 = 0.1050 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 22:09:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.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 22:09:32: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:09:32: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:09:36: 1000000 INFO @ Sat, 15 Jan 2022 22:09:41: 2000000 INFO @ Sat, 15 Jan 2022 22:09:46: 3000000 INFO @ Sat, 15 Jan 2022 22:09:50: 4000000 INFO @ Sat, 15 Jan 2022 22:09:55: 5000000 INFO @ Sat, 15 Jan 2022 22:10:00: 6000000 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 22:10:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.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 22:10:02: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:10:02: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:10:04: 7000000 INFO @ Sat, 15 Jan 2022 22:10:06: 1000000 INFO @ Sat, 15 Jan 2022 22:10:06: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 22:10:06: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 22:10:06: #1 total tags in treatment: 3330395 INFO @ Sat, 15 Jan 2022 22:10:06: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:10:06: #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 22:10:06: #1 tags after filtering in treatment: 2453970 INFO @ Sat, 15 Jan 2022 22:10:06: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 22:10:06: #1 finished! INFO @ Sat, 15 Jan 2022 22:10:06: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:10:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:10:06: #2 number of paired peaks: 22 WARNING @ Sat, 15 Jan 2022 22:10:06: Too few paired peaks (22) 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 22:10:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.05_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/SRX9067211/SRX9067211.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:10:10: 2000000 INFO @ Sat, 15 Jan 2022 22:10:13: 3000000 INFO @ Sat, 15 Jan 2022 22:10:17: 4000000 INFO @ Sat, 15 Jan 2022 22:10:21: 5000000 INFO @ Sat, 15 Jan 2022 22:10:25: 6000000 INFO @ Sat, 15 Jan 2022 22:10:29: 7000000 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 22:10:30: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 22:10:30: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 22:10:30: #1 total tags in treatment: 3330395 INFO @ Sat, 15 Jan 2022 22:10:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:10:30: #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 22:10:30: #1 tags after filtering in treatment: 2453970 INFO @ Sat, 15 Jan 2022 22:10:30: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 22:10:30: #1 finished! INFO @ Sat, 15 Jan 2022 22:10:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:10:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:10:30: #2 number of paired peaks: 22 WARNING @ Sat, 15 Jan 2022 22:10:30: Too few paired peaks (22) 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 22:10:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.10_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/SRX9067211/SRX9067211.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:10:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.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 22:10:32: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:10:32: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:10:36: 1000000 INFO @ Sat, 15 Jan 2022 22:10:41: 2000000 INFO @ Sat, 15 Jan 2022 22:10:45: 3000000 INFO @ Sat, 15 Jan 2022 22:10:50: 4000000 INFO @ Sat, 15 Jan 2022 22:10:54: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:10:58: 6000000 INFO @ Sat, 15 Jan 2022 22:11:03: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:11:04: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 22:11:04: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 22:11:04: #1 total tags in treatment: 3330395 INFO @ Sat, 15 Jan 2022 22:11:04: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:11:04: #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 22:11:05: #1 tags after filtering in treatment: 2453970 INFO @ Sat, 15 Jan 2022 22:11:05: #1 Redundant rate of treatment: 0.26 INFO @ Sat, 15 Jan 2022 22:11:05: #1 finished! INFO @ Sat, 15 Jan 2022 22:11:05: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:11:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:11:05: #2 number of paired peaks: 22 WARNING @ Sat, 15 Jan 2022 22:11:05: Too few paired peaks (22) 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 22:11:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.20_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/SRX9067211/SRX9067211.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067211/SRX9067211.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling