Job ID = 14520107 SRX = SRX7496413 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 4838453 spots for SRR10823024/SRR10823024.sra Written 4838453 spots for SRR10823024/SRR10823024.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: 00:02:29 4838453 reads; of these: 4838453 (100.00%) were paired; of these: 2477503 (51.20%) aligned concordantly 0 times 2183127 (45.12%) aligned concordantly exactly 1 time 177823 (3.68%) aligned concordantly >1 times ---- 2477503 pairs aligned concordantly 0 times; of these: 24865 (1.00%) aligned discordantly 1 time ---- 2452638 pairs aligned 0 times concordantly or discordantly; of these: 4905276 mates make up the pairs; of these: 3750566 (76.46%) aligned 0 times 1068495 (21.78%) aligned exactly 1 time 86215 (1.76%) aligned >1 times 61.24% overall alignment rate Time searching: 00:02:29 Overall time: 00:02:29 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] 240088 / 2385515 = 0.1006 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 18:26:06: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.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 18:26:06: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:26:06: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:26:11: 1000000 INFO @ Sat, 15 Jan 2022 18:26:15: 2000000 INFO @ Sat, 15 Jan 2022 18:26:20: 3000000 INFO @ Sat, 15 Jan 2022 18:26:25: 4000000 INFO @ Sat, 15 Jan 2022 18:26:30: 5000000 INFO @ Sat, 15 Jan 2022 18:26:32: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 18:26:32: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 18:26:32: #1 total tags in treatment: 2121087 INFO @ Sat, 15 Jan 2022 18:26:32: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:26:32: #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 18:26:32: #1 tags after filtering in treatment: 957141 INFO @ Sat, 15 Jan 2022 18:26:32: #1 Redundant rate of treatment: 0.55 INFO @ Sat, 15 Jan 2022 18:26:32: #1 finished! INFO @ Sat, 15 Jan 2022 18:26:32: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:26:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:26:32: #2 number of paired peaks: 2 WARNING @ Sat, 15 Jan 2022 18:26:32: Too few paired peaks (2) 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 18:26:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.05_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/SRX7496413/SRX7496413.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 18:26:35: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.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 18:26:35: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:26:35: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:26:39: 1000000 INFO @ Sat, 15 Jan 2022 18:26:44: 2000000 INFO @ Sat, 15 Jan 2022 18:26:49: 3000000 INFO @ Sat, 15 Jan 2022 18:26:53: 4000000 INFO @ Sat, 15 Jan 2022 18:26:58: 5000000 INFO @ Sat, 15 Jan 2022 18:27:00: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 18:27:00: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 18:27:00: #1 total tags in treatment: 2121087 INFO @ Sat, 15 Jan 2022 18:27:00: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:27:00: #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 18:27:00: #1 tags after filtering in treatment: 957141 INFO @ Sat, 15 Jan 2022 18:27:00: #1 Redundant rate of treatment: 0.55 INFO @ Sat, 15 Jan 2022 18:27:00: #1 finished! INFO @ Sat, 15 Jan 2022 18:27:00: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:27:00: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:27:00: #2 number of paired peaks: 2 WARNING @ Sat, 15 Jan 2022 18:27:00: Too few paired peaks (2) 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 18:27:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.10_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/SRX7496413/SRX7496413.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 18:27:05: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.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 18:27:05: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:27:05: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:27:10: 1000000 INFO @ Sat, 15 Jan 2022 18:27:16: 2000000 INFO @ Sat, 15 Jan 2022 18:27:21: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:27:26: 4000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:27:31: 5000000 INFO @ Sat, 15 Jan 2022 18:27:34: #1 tag size is determined as 37 bps INFO @ Sat, 15 Jan 2022 18:27:34: #1 tag size = 37 INFO @ Sat, 15 Jan 2022 18:27:34: #1 total tags in treatment: 2121087 INFO @ Sat, 15 Jan 2022 18:27:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:27:34: #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 18:27:34: #1 tags after filtering in treatment: 957141 INFO @ Sat, 15 Jan 2022 18:27:34: #1 Redundant rate of treatment: 0.55 INFO @ Sat, 15 Jan 2022 18:27:34: #1 finished! INFO @ Sat, 15 Jan 2022 18:27:34: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:27:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:27:34: #2 number of paired peaks: 2 WARNING @ Sat, 15 Jan 2022 18:27:34: Too few paired peaks (2) 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 18:27:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.20_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/SRX7496413/SRX7496413.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX7496413/SRX7496413.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling