Job ID = 14521899 SRX = ERX4439582 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7895386 spots for ERR4501511/ERR4501511.sra Written 7895386 spots for ERR4501511/ERR4501511.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: 00:05:39 7895386 reads; of these: 7895386 (100.00%) were paired; of these: 1531736 (19.40%) aligned concordantly 0 times 5748993 (72.81%) aligned concordantly exactly 1 time 614657 (7.79%) aligned concordantly >1 times ---- 1531736 pairs aligned concordantly 0 times; of these: 789189 (51.52%) aligned discordantly 1 time ---- 742547 pairs aligned 0 times concordantly or discordantly; of these: 1485094 mates make up the pairs; of these: 1238363 (83.39%) aligned 0 times 91667 (6.17%) aligned exactly 1 time 155064 (10.44%) aligned >1 times 92.16% overall alignment rate Time searching: 00:05:39 Overall time: 00:05:39 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] 1707538 / 7087180 = 0.2409 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 22:02:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.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 22:02:18: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:02:18: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:02:24: 1000000 INFO @ Sat, 15 Jan 2022 22:02:30: 2000000 INFO @ Sat, 15 Jan 2022 22:02:36: 3000000 INFO @ Sat, 15 Jan 2022 22:02:42: 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 22:02:48: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.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 22:02:48: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:02:48: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:02:48: 5000000 INFO @ Sat, 15 Jan 2022 22:02:55: 6000000 INFO @ Sat, 15 Jan 2022 22:02:56: 1000000 INFO @ Sat, 15 Jan 2022 22:03:03: 7000000 INFO @ Sat, 15 Jan 2022 22:03:05: 2000000 INFO @ Sat, 15 Jan 2022 22:03:10: 8000000 INFO @ Sat, 15 Jan 2022 22:03:13: 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 22:03:18: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.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 22:03:18: #1 read tag files... INFO @ Sat, 15 Jan 2022 22:03:18: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 22:03:18: 9000000 INFO @ Sat, 15 Jan 2022 22:03:22: 4000000 INFO @ Sat, 15 Jan 2022 22:03:25: 1000000 INFO @ Sat, 15 Jan 2022 22:03:25: 10000000 INFO @ Sat, 15 Jan 2022 22:03:30: 5000000 INFO @ Sat, 15 Jan 2022 22:03:33: 2000000 INFO @ Sat, 15 Jan 2022 22:03:33: 11000000 INFO @ Sat, 15 Jan 2022 22:03:34: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 22:03:34: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 22:03:34: #1 total tags in treatment: 4747035 INFO @ Sat, 15 Jan 2022 22:03:34: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:03:34: #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 22:03:34: #1 tags after filtering in treatment: 2476095 INFO @ Sat, 15 Jan 2022 22:03:34: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 15 Jan 2022 22:03:34: #1 finished! INFO @ Sat, 15 Jan 2022 22:03:34: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:03:34: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:03:34: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 22:03:34: Too few paired peaks (27) 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 22:03:34: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.05_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/ERX4439582/ERX4439582.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:03:39: 6000000 INFO @ Sat, 15 Jan 2022 22:03:41: 3000000 INFO @ Sat, 15 Jan 2022 22:03:47: 7000000 INFO @ Sat, 15 Jan 2022 22:03:48: 4000000 INFO @ Sat, 15 Jan 2022 22:03:56: 8000000 INFO @ Sat, 15 Jan 2022 22:03:56: 5000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 22:04:04: 6000000 INFO @ Sat, 15 Jan 2022 22:04:04: 9000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 22:04:11: 7000000 INFO @ Sat, 15 Jan 2022 22:04:12: 10000000 INFO @ Sat, 15 Jan 2022 22:04:19: 8000000 INFO @ Sat, 15 Jan 2022 22:04:21: 11000000 INFO @ Sat, 15 Jan 2022 22:04:22: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 22:04:22: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 22:04:22: #1 total tags in treatment: 4747035 INFO @ Sat, 15 Jan 2022 22:04:22: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:04:22: #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 22:04:22: #1 tags after filtering in treatment: 2476095 INFO @ Sat, 15 Jan 2022 22:04:22: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 15 Jan 2022 22:04:22: #1 finished! INFO @ Sat, 15 Jan 2022 22:04:22: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:04:22: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:04:22: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 22:04:22: Too few paired peaks (27) 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 22:04:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.10_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/ERX4439582/ERX4439582.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 22:04:26: 9000000 INFO @ Sat, 15 Jan 2022 22:04:33: 10000000 INFO @ Sat, 15 Jan 2022 22:04:39: 11000000 INFO @ Sat, 15 Jan 2022 22:04:40: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 22:04:40: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 22:04:40: #1 total tags in treatment: 4747035 INFO @ Sat, 15 Jan 2022 22:04:40: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 22:04:40: #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 22:04:40: #1 tags after filtering in treatment: 2476095 INFO @ Sat, 15 Jan 2022 22:04:40: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 15 Jan 2022 22:04:40: #1 finished! INFO @ Sat, 15 Jan 2022 22:04:40: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 22:04:40: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 22:04:40: #2 number of paired peaks: 27 WARNING @ Sat, 15 Jan 2022 22:04:40: Too few paired peaks (27) 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 22:04:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.20_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/ERX4439582/ERX4439582.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439582/ERX4439582.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling