Job ID = 14519799 SRX = SRX9369642 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 1946920 spots for SRR12904765/SRR12904765.sra Written 1946920 spots for SRR12904765/SRR12904765.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: 00:00:58 1946920 reads; of these: 1946920 (100.00%) were paired; of these: 363675 (18.68%) aligned concordantly 0 times 1331071 (68.37%) aligned concordantly exactly 1 time 252174 (12.95%) aligned concordantly >1 times ---- 363675 pairs aligned concordantly 0 times; of these: 34880 (9.59%) aligned discordantly 1 time ---- 328795 pairs aligned 0 times concordantly or discordantly; of these: 657590 mates make up the pairs; of these: 634852 (96.54%) aligned 0 times 8074 (1.23%) aligned exactly 1 time 14664 (2.23%) aligned >1 times 83.70% overall alignment rate Time searching: 00:00:58 Overall time: 00:00:58 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_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] 161647 / 1614704 = 0.1001 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 17:48:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.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 17:48:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:48:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:48:16: 1000000 INFO @ Sat, 15 Jan 2022 17:48:22: 2000000 INFO @ Sat, 15 Jan 2022 17:48:28: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 17:48:28: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 17:48:28: #1 total tags in treatment: 1423701 INFO @ Sat, 15 Jan 2022 17:48:28: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:48:28: #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 17:48:28: #1 tags after filtering in treatment: 1200823 INFO @ Sat, 15 Jan 2022 17:48:28: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 17:48:28: #1 finished! INFO @ Sat, 15 Jan 2022 17:48:28: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:48:28: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:48:28: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 17:48:28: Too few paired peaks (29) 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 17:48:28: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.05_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/SRX9369642/SRX9369642.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 17:48:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.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 17:48:39: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:48:39: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:48:46: 1000000 INFO @ Sat, 15 Jan 2022 17:48:52: 2000000 INFO @ Sat, 15 Jan 2022 17:48:58: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 17:48:58: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 17:48:58: #1 total tags in treatment: 1423701 INFO @ Sat, 15 Jan 2022 17:48:58: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:48:58: #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 17:48:58: #1 tags after filtering in treatment: 1200823 INFO @ Sat, 15 Jan 2022 17:48:58: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 17:48:58: #1 finished! INFO @ Sat, 15 Jan 2022 17:48:58: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:48:58: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:48:58: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 17:48:58: Too few paired peaks (29) 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 17:48:58: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.10_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/SRX9369642/SRX9369642.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling 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 17:49:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.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 17:49:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 17:49:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 17:49:16: 1000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 17:49:22: 2000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 17:49:29: #1 tag size is determined as 51 bps INFO @ Sat, 15 Jan 2022 17:49:29: #1 tag size = 51 INFO @ Sat, 15 Jan 2022 17:49:29: #1 total tags in treatment: 1423701 INFO @ Sat, 15 Jan 2022 17:49:29: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 17:49:29: #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 17:49:29: #1 tags after filtering in treatment: 1200823 INFO @ Sat, 15 Jan 2022 17:49:29: #1 Redundant rate of treatment: 0.16 INFO @ Sat, 15 Jan 2022 17:49:29: #1 finished! INFO @ Sat, 15 Jan 2022 17:49:29: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 17:49:29: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 17:49:29: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 17:49:29: Too few paired peaks (29) 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 17:49:29: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.20_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/SRX9369642/SRX9369642.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX9369642/SRX9369642.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling