Job ID = 14521847 SRX = SRX9399090 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7601233 spots for SRR12935371/SRR12935371.sra Written 7601233 spots for SRR12935371/SRR12935371.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: 00:06:45 7601233 reads; of these: 7601233 (100.00%) were paired; of these: 5923540 (77.93%) aligned concordantly 0 times 1355072 (17.83%) aligned concordantly exactly 1 time 322621 (4.24%) aligned concordantly >1 times ---- 5923540 pairs aligned concordantly 0 times; of these: 1402472 (23.68%) aligned discordantly 1 time ---- 4521068 pairs aligned 0 times concordantly or discordantly; of these: 9042136 mates make up the pairs; of these: 8007354 (88.56%) aligned 0 times 209797 (2.32%) aligned exactly 1 time 824985 (9.12%) aligned >1 times 47.33% overall alignment rate Time searching: 00:06:45 Overall time: 00:06:45 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] 1227195 / 3028176 = 0.4053 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 21:52:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.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 21:52:19: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:52:19: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:52:26: 1000000 INFO @ Sat, 15 Jan 2022 21:52:34: 2000000 INFO @ Sat, 15 Jan 2022 21:52:41: 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 21:52:49: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.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 21:52:49: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:52:49: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:52:49: 4000000 INFO @ Sat, 15 Jan 2022 21:52:55: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 21:52:55: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 21:52:55: #1 total tags in treatment: 911576 INFO @ Sat, 15 Jan 2022 21:52:55: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:52:55: #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 21:52:55: #1 tags after filtering in treatment: 754658 INFO @ Sat, 15 Jan 2022 21:52:55: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 21:52:55: #1 finished! INFO @ Sat, 15 Jan 2022 21:52:55: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:52:55: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:52:55: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 21:52:55: Too few paired peaks (30) 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 21:52:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.05_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/SRX9399090/SRX9399090.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:52:55: 1000000 INFO @ Sat, 15 Jan 2022 21:53:01: 2000000 INFO @ Sat, 15 Jan 2022 21:53:07: 3000000 INFO @ Sat, 15 Jan 2022 21:53:13: 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 21:53:18: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 21:53:18: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 21:53:18: #1 total tags in treatment: 911576 INFO @ Sat, 15 Jan 2022 21:53:18: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:53:18: #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 21:53:18: #1 tags after filtering in treatment: 754658 INFO @ Sat, 15 Jan 2022 21:53:18: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 21:53:18: #1 finished! INFO @ Sat, 15 Jan 2022 21:53:18: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:53:18: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:53:18: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 21:53:18: Too few paired peaks (30) 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 21:53:18: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.10_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/SRX9399090/SRX9399090.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:53:19: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.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 21:53:19: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:53:19: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:53:26: 1000000 INFO @ Sat, 15 Jan 2022 21:53:33: 2000000 INFO @ Sat, 15 Jan 2022 21:53:41: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:53:49: 4000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:53:54: #1 tag size is determined as 150 bps INFO @ Sat, 15 Jan 2022 21:53:54: #1 tag size = 150 INFO @ Sat, 15 Jan 2022 21:53:54: #1 total tags in treatment: 911576 INFO @ Sat, 15 Jan 2022 21:53:54: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:53:54: #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 21:53:54: #1 tags after filtering in treatment: 754658 INFO @ Sat, 15 Jan 2022 21:53:54: #1 Redundant rate of treatment: 0.17 INFO @ Sat, 15 Jan 2022 21:53:54: #1 finished! INFO @ Sat, 15 Jan 2022 21:53:54: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:53:54: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:53:54: #2 number of paired peaks: 30 WARNING @ Sat, 15 Jan 2022 21:53:54: Too few paired peaks (30) 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 21:53:54: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.20_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/SRX9399090/SRX9399090.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9399090/SRX9399090.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling