Job ID = 14520513 SRX = SRX11781052 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2022-01-15T10:16:08 prefetch.2.10.7: 1) Downloading 'SRR15480995'... 2022-01-15T10:16:08 prefetch.2.10.7: Downloading via HTTPS... 2022-01-15T10:16:37 prefetch.2.10.7: HTTPS download succeed 2022-01-15T10:16:38 prefetch.2.10.7: 'SRR15480995' is valid 2022-01-15T10:16:38 prefetch.2.10.7: 1) 'SRR15480995' was downloaded successfully 2022-01-15T10:16:38 prefetch.2.10.7: 'SRR15480995' has 0 unresolved dependencies Read 6416761 spots for SRR15480995/SRR15480995.sra Written 6416761 spots for SRR15480995/SRR15480995.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: 00:05:46 6416761 reads; of these: 6416761 (100.00%) were paired; of these: 3233947 (50.40%) aligned concordantly 0 times 3100413 (48.32%) aligned concordantly exactly 1 time 82401 (1.28%) aligned concordantly >1 times ---- 3233947 pairs aligned concordantly 0 times; of these: 276894 (8.56%) aligned discordantly 1 time ---- 2957053 pairs aligned 0 times concordantly or discordantly; of these: 5914106 mates make up the pairs; of these: 3713786 (62.80%) aligned 0 times 2133348 (36.07%) aligned exactly 1 time 66972 (1.13%) aligned >1 times 71.06% overall alignment rate Time searching: 00:05:46 Overall time: 00:05:46 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] 1005580 / 3438354 = 0.2925 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 19:26:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.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 19:26:53: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:26:53: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:27:00: 1000000 INFO @ Sat, 15 Jan 2022 19:27:09: 2000000 INFO @ Sat, 15 Jan 2022 19:27:17: 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 19:27:23: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.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 19:27:23: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:27:23: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:27:26: 4000000 INFO @ Sat, 15 Jan 2022 19:27:32: 1000000 INFO @ Sat, 15 Jan 2022 19:27:34: 5000000 INFO @ Sat, 15 Jan 2022 19:27:40: 2000000 INFO @ Sat, 15 Jan 2022 19:27:42: 6000000 INFO @ Sat, 15 Jan 2022 19:27:49: 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 19:27:51: 7000000 INFO @ Sat, 15 Jan 2022 19:27:52: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:27:52: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:27:52: #1 total tags in treatment: 2256342 INFO @ Sat, 15 Jan 2022 19:27:52: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:27:52: #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 19:27:52: #1 tags after filtering in treatment: 177446 INFO @ Sat, 15 Jan 2022 19:27:52: #1 Redundant rate of treatment: 0.92 INFO @ Sat, 15 Jan 2022 19:27:52: #1 finished! INFO @ Sat, 15 Jan 2022 19:27:52: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:27:52: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:27:52: #2 number of paired peaks: 26 WARNING @ Sat, 15 Jan 2022 19:27:52: Too few paired peaks (26) 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 19:27:52: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.05_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/SRX11781052/SRX11781052.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:27:53: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.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 19:27:53: #1 read tag files... INFO @ Sat, 15 Jan 2022 19:27:53: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 19:27:58: 4000000 INFO @ Sat, 15 Jan 2022 19:28:02: 1000000 INFO @ Sat, 15 Jan 2022 19:28:06: 5000000 INFO @ Sat, 15 Jan 2022 19:28:09: 2000000 INFO @ Sat, 15 Jan 2022 19:28:13: 6000000 BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 19:28:16: 3000000 INFO @ Sat, 15 Jan 2022 19:28:21: 7000000 INFO @ Sat, 15 Jan 2022 19:28:22: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:28:22: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:28:22: #1 total tags in treatment: 2256342 INFO @ Sat, 15 Jan 2022 19:28:22: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:28:22: #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 19:28:22: #1 tags after filtering in treatment: 177446 INFO @ Sat, 15 Jan 2022 19:28:22: #1 Redundant rate of treatment: 0.92 INFO @ Sat, 15 Jan 2022 19:28:22: #1 finished! INFO @ Sat, 15 Jan 2022 19:28:22: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:28:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:28:22: #2 number of paired peaks: 26 WARNING @ Sat, 15 Jan 2022 19:28:22: Too few paired peaks (26) 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 19:28:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.10_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/SRX11781052/SRX11781052.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 19:28:24: 4000000 INFO @ Sat, 15 Jan 2022 19:28:31: 5000000 INFO @ Sat, 15 Jan 2022 19:28:38: 6000000 INFO @ Sat, 15 Jan 2022 19:28:45: 7000000 INFO @ Sat, 15 Jan 2022 19:28:46: #1 tag size is determined as 80 bps INFO @ Sat, 15 Jan 2022 19:28:46: #1 tag size = 80 INFO @ Sat, 15 Jan 2022 19:28:46: #1 total tags in treatment: 2256342 INFO @ Sat, 15 Jan 2022 19:28:46: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 19:28:46: #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 19:28:46: #1 tags after filtering in treatment: 177446 INFO @ Sat, 15 Jan 2022 19:28:46: #1 Redundant rate of treatment: 0.92 INFO @ Sat, 15 Jan 2022 19:28:46: #1 finished! INFO @ Sat, 15 Jan 2022 19:28:46: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 19:28:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 19:28:46: #2 number of paired peaks: 26 WARNING @ Sat, 15 Jan 2022 19:28:46: Too few paired peaks (26) 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 19:28:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.20_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/SRX11781052/SRX11781052.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX11781052/SRX11781052.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling