Job ID = 14520059 SRX = SRX8754197 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3725987 spots for SRR12246268/SRR12246268.sra Written 3725987 spots for SRR12246268/SRR12246268.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: 00:01:51 3725987 reads; of these: 3725987 (100.00%) were paired; of these: 470050 (12.62%) aligned concordantly 0 times 2319057 (62.24%) aligned concordantly exactly 1 time 936880 (25.14%) aligned concordantly >1 times ---- 470050 pairs aligned concordantly 0 times; of these: 131043 (27.88%) aligned discordantly 1 time ---- 339007 pairs aligned 0 times concordantly or discordantly; of these: 678014 mates make up the pairs; of these: 493656 (72.81%) aligned 0 times 52843 (7.79%) aligned exactly 1 time 131515 (19.40%) aligned >1 times 93.38% overall alignment rate Time searching: 00:01:51 Overall time: 00:01:51 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] 389956 / 3385692 = 0.1152 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 18:18:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.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 18:18:41: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:18:41: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:18:45: 1000000 INFO @ Sat, 15 Jan 2022 18:18:49: 2000000 INFO @ Sat, 15 Jan 2022 18:18:53: 3000000 INFO @ Sat, 15 Jan 2022 18:18:57: 4000000 INFO @ Sat, 15 Jan 2022 18:19:01: 5000000 INFO @ Sat, 15 Jan 2022 18:19:05: 6000000 INFO @ Sat, 15 Jan 2022 18:19:06: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 18:19:06: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 18:19:06: #1 total tags in treatment: 2874405 INFO @ Sat, 15 Jan 2022 18:19:06: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:19:06: #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 18:19:06: #1 tags after filtering in treatment: 2110530 INFO @ Sat, 15 Jan 2022 18:19:06: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 18:19:06: #1 finished! INFO @ Sat, 15 Jan 2022 18:19:06: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:19:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:19:06: #2 number of paired peaks: 40 WARNING @ Sat, 15 Jan 2022 18:19:06: Too few paired peaks (40) 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 18:19:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.05_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/SRX8754197/SRX8754197.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.05_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 18:19:11: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.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 18:19:11: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:19:11: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:19:16: 1000000 INFO @ Sat, 15 Jan 2022 18:19:20: 2000000 INFO @ Sat, 15 Jan 2022 18:19:25: 3000000 INFO @ Sat, 15 Jan 2022 18:19:30: 4000000 INFO @ Sat, 15 Jan 2022 18:19:35: 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 18:19:39: 6000000 INFO @ Sat, 15 Jan 2022 18:19:40: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 18:19:40: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 18:19:40: #1 total tags in treatment: 2874405 INFO @ Sat, 15 Jan 2022 18:19:40: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:19:40: #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 18:19:40: #1 tags after filtering in treatment: 2110530 INFO @ Sat, 15 Jan 2022 18:19:40: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 18:19:40: #1 finished! INFO @ Sat, 15 Jan 2022 18:19:40: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:19:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:19:40: #2 number of paired peaks: 40 WARNING @ Sat, 15 Jan 2022 18:19:40: Too few paired peaks (40) 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 18:19:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.10_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/SRX8754197/SRX8754197.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:19:41: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.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 18:19:41: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:19:41: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:19:45: 1000000 INFO @ Sat, 15 Jan 2022 18:19:49: 2000000 INFO @ Sat, 15 Jan 2022 18:19:53: 3000000 INFO @ Sat, 15 Jan 2022 18:19:57: 4000000 INFO @ Sat, 15 Jan 2022 18:20:01: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:20:05: 6000000 INFO @ Sat, 15 Jan 2022 18:20:06: #1 tag size is determined as 38 bps INFO @ Sat, 15 Jan 2022 18:20:06: #1 tag size = 38 INFO @ Sat, 15 Jan 2022 18:20:06: #1 total tags in treatment: 2874405 INFO @ Sat, 15 Jan 2022 18:20:06: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:20:06: #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 18:20:06: #1 tags after filtering in treatment: 2110530 INFO @ Sat, 15 Jan 2022 18:20:06: #1 Redundant rate of treatment: 0.27 INFO @ Sat, 15 Jan 2022 18:20:06: #1 finished! INFO @ Sat, 15 Jan 2022 18:20:06: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:20:06: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:20:06: #2 number of paired peaks: 40 WARNING @ Sat, 15 Jan 2022 18:20:06: Too few paired peaks (40) 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 18:20:06: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.20_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/SRX8754197/SRX8754197.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8754197/SRX8754197.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。