Job ID = 14521746 SRX = ERX4439636 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 6716005 spots for ERR4501565/ERR4501565.sra Written 6716005 spots for ERR4501565/ERR4501565.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: 00:05:06 6716005 reads; of these: 6716005 (100.00%) were paired; of these: 1615941 (24.06%) aligned concordantly 0 times 4383115 (65.26%) aligned concordantly exactly 1 time 716949 (10.68%) aligned concordantly >1 times ---- 1615941 pairs aligned concordantly 0 times; of these: 699818 (43.31%) aligned discordantly 1 time ---- 916123 pairs aligned 0 times concordantly or discordantly; of these: 1832246 mates make up the pairs; of these: 1542938 (84.21%) aligned 0 times 85437 (4.66%) aligned exactly 1 time 203871 (11.13%) aligned >1 times 88.51% overall alignment rate Time searching: 00:05:06 Overall time: 00:05:06 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] 1559258 / 5743377 = 0.2715 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 21:46:02: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.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 21:46:02: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:46:02: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:46:10: 1000000 INFO @ Sat, 15 Jan 2022 21:46:18: 2000000 INFO @ Sat, 15 Jan 2022 21:46:27: 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 21:46:31: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.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 21:46:31: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:46:31: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:46:35: 4000000 INFO @ Sat, 15 Jan 2022 21:46:40: 1000000 INFO @ Sat, 15 Jan 2022 21:46:45: 5000000 INFO @ Sat, 15 Jan 2022 21:46:49: 2000000 INFO @ Sat, 15 Jan 2022 21:46:54: 6000000 INFO @ Sat, 15 Jan 2022 21:46:58: 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 21:47:01: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.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 21:47:01: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:47:01: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:47:04: 7000000 INFO @ Sat, 15 Jan 2022 21:47:07: 4000000 INFO @ Sat, 15 Jan 2022 21:47:10: 1000000 INFO @ Sat, 15 Jan 2022 21:47:14: 8000000 INFO @ Sat, 15 Jan 2022 21:47:15: 5000000 INFO @ Sat, 15 Jan 2022 21:47:19: 2000000 INFO @ Sat, 15 Jan 2022 21:47:22: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:47:22: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:47:22: #1 total tags in treatment: 3625260 INFO @ Sat, 15 Jan 2022 21:47:22: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:47:22: #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 21:47:22: #1 tags after filtering in treatment: 1851552 INFO @ Sat, 15 Jan 2022 21:47:22: #1 Redundant rate of treatment: 0.49 INFO @ Sat, 15 Jan 2022 21:47:22: #1 finished! INFO @ Sat, 15 Jan 2022 21:47:22: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:47:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:47:22: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 21:47:22: 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 21:47:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.05_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/ERX4439636/ERX4439636.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:47:24: 6000000 INFO @ Sat, 15 Jan 2022 21:47:27: 3000000 INFO @ Sat, 15 Jan 2022 21:47:33: 7000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:47:36: 4000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:47:41: 8000000 INFO @ Sat, 15 Jan 2022 21:47:44: 5000000 INFO @ Sat, 15 Jan 2022 21:47:48: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:47:48: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:47:48: #1 total tags in treatment: 3625260 INFO @ Sat, 15 Jan 2022 21:47:48: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:47:48: #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 21:47:48: #1 tags after filtering in treatment: 1851552 INFO @ Sat, 15 Jan 2022 21:47:48: #1 Redundant rate of treatment: 0.49 INFO @ Sat, 15 Jan 2022 21:47:48: #1 finished! INFO @ Sat, 15 Jan 2022 21:47:48: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:47:48: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:47:48: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 21:47:48: 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 21:47:48: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.10_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/ERX4439636/ERX4439636.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:47:52: 6000000 INFO @ Sat, 15 Jan 2022 21:48:00: 7000000 INFO @ Sat, 15 Jan 2022 21:48:07: 8000000 INFO @ Sat, 15 Jan 2022 21:48:13: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:48:13: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:48:13: #1 total tags in treatment: 3625260 INFO @ Sat, 15 Jan 2022 21:48:13: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:48:13: #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 21:48:13: #1 tags after filtering in treatment: 1851552 INFO @ Sat, 15 Jan 2022 21:48:13: #1 Redundant rate of treatment: 0.49 INFO @ Sat, 15 Jan 2022 21:48:13: #1 finished! INFO @ Sat, 15 Jan 2022 21:48:13: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:48:13: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:48:13: #2 number of paired peaks: 29 WARNING @ Sat, 15 Jan 2022 21:48:13: 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 21:48:13: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.20_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/ERX4439636/ERX4439636.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439636/ERX4439636.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling