Job ID = 14519705 SRX = SRX9067186 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7716776 spots for SRR12580339/SRR12580339.sra Written 7716776 spots for SRR12580339/SRR12580339.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: 00:03:22 7716776 reads; of these: 7716776 (100.00%) were paired; of these: 1735563 (22.49%) aligned concordantly 0 times 4598857 (59.60%) aligned concordantly exactly 1 time 1382356 (17.91%) aligned concordantly >1 times ---- 1735563 pairs aligned concordantly 0 times; of these: 95740 (5.52%) aligned discordantly 1 time ---- 1639823 pairs aligned 0 times concordantly or discordantly; of these: 3279646 mates make up the pairs; of these: 3126032 (95.32%) aligned 0 times 86605 (2.64%) aligned exactly 1 time 67009 (2.04%) aligned >1 times 79.75% overall alignment rate Time searching: 00:03:22 Overall time: 00:03:22 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] 2313386 / 6060398 = 0.3817 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 17:36:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.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 17:36:30: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:36:30: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:36:35: 1000000 INFO @ Sat, 15 Jan 2022 17:36:40: 2000000 INFO @ Sat, 15 Jan 2022 17:36:45: 3000000 INFO @ Sat, 15 Jan 2022 17:36:50: 4000000 INFO @ Sat, 15 Jan 2022 17:36:55: 5000000 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 17:37:00: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.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 17:37:00: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:37:00: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:37:00: 6000000 INFO @ Sat, 15 Jan 2022 17:37:05: 1000000 INFO @ Sat, 15 Jan 2022 17:37:06: 7000000 INFO @ Sat, 15 Jan 2022 17:37:09: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 17:37:09: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 17:37:09: #1 total tags in treatment: 3681823 INFO @ Sat, 15 Jan 2022 17:37:09: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:37:09: #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 17:37:09: #1 tags after filtering in treatment: 2522665 INFO @ Sat, 15 Jan 2022 17:37:09: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 17:37:09: #1 finished! INFO @ Sat, 15 Jan 2022 17:37:09: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:37:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:37:09: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 17:37:09: Too few paired peaks (28) 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 17:37:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.05_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/SRX9067186/SRX9067186.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:37:10: 2000000 INFO @ Sat, 15 Jan 2022 17:37:15: 3000000 INFO @ Sat, 15 Jan 2022 17:37:21: 4000000 INFO @ Sat, 15 Jan 2022 17:37:25: 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 17:37:30: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.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 17:37:30: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:37:30: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:37:30: 6000000 INFO @ Sat, 15 Jan 2022 17:37:35: 1000000 INFO @ Sat, 15 Jan 2022 17:37:36: 7000000 INFO @ Sat, 15 Jan 2022 17:37:39: 2000000 INFO @ Sat, 15 Jan 2022 17:37:39: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 17:37:39: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 17:37:39: #1 total tags in treatment: 3681823 INFO @ Sat, 15 Jan 2022 17:37:39: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:37:39: #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 17:37:39: #1 tags after filtering in treatment: 2522665 INFO @ Sat, 15 Jan 2022 17:37:39: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 17:37:39: #1 finished! INFO @ Sat, 15 Jan 2022 17:37:39: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:37:39: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:37:40: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 17:37:40: Too few paired peaks (28) 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 17:37:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.10_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/SRX9067186/SRX9067186.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 17:37:44: 3000000 INFO @ Sat, 15 Jan 2022 17:37:48: 4000000 INFO @ Sat, 15 Jan 2022 17:37:53: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:37:57: 6000000 INFO @ Sat, 15 Jan 2022 17:38:01: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:38:04: #1 tag size is determined as 50 bps INFO @ Sat, 15 Jan 2022 17:38:04: #1 tag size = 50 INFO @ Sat, 15 Jan 2022 17:38:04: #1 total tags in treatment: 3681823 INFO @ Sat, 15 Jan 2022 17:38:04: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:38:04: #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 17:38:05: #1 tags after filtering in treatment: 2522665 INFO @ Sat, 15 Jan 2022 17:38:05: #1 Redundant rate of treatment: 0.31 INFO @ Sat, 15 Jan 2022 17:38:05: #1 finished! INFO @ Sat, 15 Jan 2022 17:38:05: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:38:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:38:05: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 17:38:05: Too few paired peaks (28) 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 17:38:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.20_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/SRX9067186/SRX9067186.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9067186/SRX9067186.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling