Job ID = 14521961 SRX = SRX6950505 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3609052 spots for SRR10231165/SRR10231165.sra Written 3609052 spots for SRR10231165/SRR10231165.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: 00:04:16 3609052 reads; of these: 3609052 (100.00%) were paired; of these: 720076 (19.95%) aligned concordantly 0 times 2645754 (73.31%) aligned concordantly exactly 1 time 243222 (6.74%) aligned concordantly >1 times ---- 720076 pairs aligned concordantly 0 times; of these: 319034 (44.31%) aligned discordantly 1 time ---- 401042 pairs aligned 0 times concordantly or discordantly; of these: 802084 mates make up the pairs; of these: 686177 (85.55%) aligned 0 times 47908 (5.97%) aligned exactly 1 time 67999 (8.48%) aligned >1 times 90.49% overall alignment rate Time searching: 00:04:16 Overall time: 00:04:16 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] 286107 / 2610810 = 0.1096 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 22:01:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.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 22:01:50: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:01:50: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:01:56: 1000000 INFO @ Sat, 15 Jan 2022 22:02:02: 2000000 INFO @ Sat, 15 Jan 2022 22:02:09: 3000000 INFO @ Sat, 15 Jan 2022 22:02:15: 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 22:02:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.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 22:02:20: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:02:20: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:02:21: 5000000 INFO @ Sat, 15 Jan 2022 22:02:28: #1 tag size is determined as 147 bps INFO @ Sat, 15 Jan 2022 22:02:28: #1 tag size = 147 INFO @ Sat, 15 Jan 2022 22:02:28: #1 total tags in treatment: 2637664 INFO @ Sat, 15 Jan 2022 22:02:28: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:02:28: #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 22:02:28: #1 tags after filtering in treatment: 2289046 INFO @ Sat, 15 Jan 2022 22:02:28: #1 Redundant rate of treatment: 0.13 INFO @ Sat, 15 Jan 2022 22:02:28: #1 finished! INFO @ Sat, 15 Jan 2022 22:02:28: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:02:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:02:28: #2 number of paired peaks: 67 WARNING @ Sat, 15 Jan 2022 22:02:28: Too few paired peaks (67) 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 22:02:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.05_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/SRX6950505/SRX6950505.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:02:28: 1000000 INFO @ Sat, 15 Jan 2022 22:02:37: 2000000 INFO @ Sat, 15 Jan 2022 22:02:45: 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 22:02:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.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 22:02:50: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:02:50: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:02:53: 4000000 INFO @ Sat, 15 Jan 2022 22:02:57: 1000000 INFO @ Sat, 15 Jan 2022 22:03:02: 5000000 INFO @ Sat, 15 Jan 2022 22:03:04: 2000000 INFO @ Sat, 15 Jan 2022 22:03:10: #1 tag size is determined as 147 bps INFO @ Sat, 15 Jan 2022 22:03:10: #1 tag size = 147 INFO @ Sat, 15 Jan 2022 22:03:10: #1 total tags in treatment: 2637664 INFO @ Sat, 15 Jan 2022 22:03:10: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:03:10: #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 22:03:10: #1 tags after filtering in treatment: 2289046 INFO @ Sat, 15 Jan 2022 22:03:10: #1 Redundant rate of treatment: 0.13 INFO @ Sat, 15 Jan 2022 22:03:10: #1 finished! INFO @ Sat, 15 Jan 2022 22:03:10: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:03:10: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:03:10: #2 number of paired peaks: 67 WARNING @ Sat, 15 Jan 2022 22:03:10: Too few paired peaks (67) 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 22:03:10: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.10_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/SRX6950505/SRX6950505.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:03:11: 3000000 INFO @ Sat, 15 Jan 2022 22:03:18: 4000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:03:24: 5000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:03:30: #1 tag size is determined as 147 bps INFO @ Sat, 15 Jan 2022 22:03:30: #1 tag size = 147 INFO @ Sat, 15 Jan 2022 22:03:30: #1 total tags in treatment: 2637664 INFO @ Sat, 15 Jan 2022 22:03:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:03:30: #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 22:03:30: #1 tags after filtering in treatment: 2289046 INFO @ Sat, 15 Jan 2022 22:03:30: #1 Redundant rate of treatment: 0.13 INFO @ Sat, 15 Jan 2022 22:03:30: #1 finished! INFO @ Sat, 15 Jan 2022 22:03:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:03:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:03:30: #2 number of paired peaks: 67 WARNING @ Sat, 15 Jan 2022 22:03:30: Too few paired peaks (67) 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 22:03:30: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.20_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/SRX6950505/SRX6950505.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX6950505/SRX6950505.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling