Job ID = 14521360 SRX = SRX8952646 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 15668928 spots for SRR12458240/SRR12458240.sra Written 15668928 spots for SRR12458240/SRR12458240.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: 00:03:58 15668928 reads; of these: 15668928 (100.00%) were paired; of these: 10424056 (66.53%) aligned concordantly 0 times 4436264 (28.31%) aligned concordantly exactly 1 time 808608 (5.16%) aligned concordantly >1 times ---- 10424056 pairs aligned concordantly 0 times; of these: 389884 (3.74%) aligned discordantly 1 time ---- 10034172 pairs aligned 0 times concordantly or discordantly; of these: 20068344 mates make up the pairs; of these: 19043004 (94.89%) aligned 0 times 639734 (3.19%) aligned exactly 1 time 385606 (1.92%) aligned >1 times 39.23% overall alignment rate Time searching: 00:03:58 Overall time: 00:03:58 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_sort_core] merging from 8 files... [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] 1753509 / 5607819 = 0.3127 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 21:01:03: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.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 21:01:03: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:01:03: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:01:09: 1000000 INFO @ Sat, 15 Jan 2022 21:01:15: 2000000 INFO @ Sat, 15 Jan 2022 21:01:20: 3000000 INFO @ Sat, 15 Jan 2022 21:01:26: 4000000 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 21:01:32: 5000000 INFO @ Sat, 15 Jan 2022 21:01:32: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.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 21:01:32: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:01:32: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:01:39: 6000000 INFO @ Sat, 15 Jan 2022 21:01:39: 1000000 INFO @ Sat, 15 Jan 2022 21:01:45: 7000000 INFO @ Sat, 15 Jan 2022 21:01:45: 2000000 INFO @ Sat, 15 Jan 2022 21:01:52: 8000000 INFO @ Sat, 15 Jan 2022 21:01:52: 3000000 INFO @ Sat, 15 Jan 2022 21:01:57: #1 tag size is determined as 45 bps INFO @ Sat, 15 Jan 2022 21:01:57: #1 tag size = 45 INFO @ Sat, 15 Jan 2022 21:01:57: #1 total tags in treatment: 3568156 INFO @ Sat, 15 Jan 2022 21:01:57: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:01:57: #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 21:01:57: #1 tags after filtering in treatment: 2708775 INFO @ Sat, 15 Jan 2022 21:01:57: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 21:01:57: #1 finished! INFO @ Sat, 15 Jan 2022 21:01:57: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:01:57: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:01:57: #2 number of paired peaks: 98 WARNING @ Sat, 15 Jan 2022 21:01:57: Too few paired peaks (98) 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 21:01:57: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.05_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/SRX8952646/SRX8952646.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:01:58: 4000000 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 21:02:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.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 21:02:02: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:02:02: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:02:04: 5000000 INFO @ Sat, 15 Jan 2022 21:02:08: 1000000 INFO @ Sat, 15 Jan 2022 21:02:11: 6000000 INFO @ Sat, 15 Jan 2022 21:02:14: 2000000 INFO @ Sat, 15 Jan 2022 21:02:17: 7000000 INFO @ Sat, 15 Jan 2022 21:02:20: 3000000 INFO @ Sat, 15 Jan 2022 21:02:24: 8000000 INFO @ Sat, 15 Jan 2022 21:02:25: 4000000 INFO @ Sat, 15 Jan 2022 21:02:29: #1 tag size is determined as 45 bps INFO @ Sat, 15 Jan 2022 21:02:29: #1 tag size = 45 INFO @ Sat, 15 Jan 2022 21:02:29: #1 total tags in treatment: 3568156 INFO @ Sat, 15 Jan 2022 21:02:29: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:02:29: #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 21:02:29: #1 tags after filtering in treatment: 2708775 INFO @ Sat, 15 Jan 2022 21:02:29: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 21:02:29: #1 finished! INFO @ Sat, 15 Jan 2022 21:02:29: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:02:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:02:29: #2 number of paired peaks: 98 WARNING @ Sat, 15 Jan 2022 21:02:29: Too few paired peaks (98) 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 21:02:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.10_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/SRX8952646/SRX8952646.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:02:31: 5000000 INFO @ Sat, 15 Jan 2022 21:02:36: 6000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:02:41: 7000000 INFO @ Sat, 15 Jan 2022 21:02:46: 8000000 INFO @ Sat, 15 Jan 2022 21:02:50: #1 tag size is determined as 45 bps INFO @ Sat, 15 Jan 2022 21:02:50: #1 tag size = 45 INFO @ Sat, 15 Jan 2022 21:02:50: #1 total tags in treatment: 3568156 INFO @ Sat, 15 Jan 2022 21:02:50: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:02:50: #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 21:02:50: #1 tags after filtering in treatment: 2708775 INFO @ Sat, 15 Jan 2022 21:02:50: #1 Redundant rate of treatment: 0.24 INFO @ Sat, 15 Jan 2022 21:02:50: #1 finished! INFO @ Sat, 15 Jan 2022 21:02:50: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:02:50: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:02:50: #2 number of paired peaks: 98 WARNING @ Sat, 15 Jan 2022 21:02:50: Too few paired peaks (98) 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 21:02:50: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.20_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/SRX8952646/SRX8952646.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8952646/SRX8952646.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling