Job ID = 14521840 SRX = ERX4439553 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 3761164 spots for ERR4501482/ERR4501482.sra Written 3761164 spots for ERR4501482/ERR4501482.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: 00:04:10 3761164 reads; of these: 3761164 (100.00%) were paired; of these: 870170 (23.14%) aligned concordantly 0 times 2571782 (68.38%) aligned concordantly exactly 1 time 319212 (8.49%) aligned concordantly >1 times ---- 870170 pairs aligned concordantly 0 times; of these: 355685 (40.88%) aligned discordantly 1 time ---- 514485 pairs aligned 0 times concordantly or discordantly; of these: 1028970 mates make up the pairs; of these: 882013 (85.72%) aligned 0 times 51887 (5.04%) aligned exactly 1 time 95070 (9.24%) aligned >1 times 88.27% overall alignment rate Time searching: 00:04:10 Overall time: 00:04:10 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] 42478 / 3221051 = 0.0132 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 21:52:09: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.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 21:52:09: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:52:09: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:52:19: 1000000 INFO @ Sat, 15 Jan 2022 21:52:30: 2000000 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 21:52:39: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.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 21:52:39: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:52:39: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:52:40: 3000000 INFO @ Sat, 15 Jan 2022 21:52:51: 1000000 INFO @ Sat, 15 Jan 2022 21:52:51: 4000000 INFO @ Sat, 15 Jan 2022 21:53:02: 5000000 INFO @ Sat, 15 Jan 2022 21:53:03: 2000000 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 21:53:08: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.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 21:53:08: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:53:08: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:53:13: 6000000 INFO @ Sat, 15 Jan 2022 21:53:15: 3000000 INFO @ Sat, 15 Jan 2022 21:53:19: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:53:19: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:53:19: #1 total tags in treatment: 2854112 INFO @ Sat, 15 Jan 2022 21:53:19: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:53:19: #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 21:53:19: #1 tags after filtering in treatment: 2559638 INFO @ Sat, 15 Jan 2022 21:53:19: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 15 Jan 2022 21:53:19: #1 finished! INFO @ Sat, 15 Jan 2022 21:53:19: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:53:19: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:53:19: #2 number of paired peaks: 88 WARNING @ Sat, 15 Jan 2022 21:53:19: Too few paired peaks (88) 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 21:53:19: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.05_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/ERX4439553/ERX4439553.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:53:20: 1000000 INFO @ Sat, 15 Jan 2022 21:53:26: 4000000 INFO @ Sat, 15 Jan 2022 21:53:32: 2000000 INFO @ Sat, 15 Jan 2022 21:53:38: 5000000 INFO @ Sat, 15 Jan 2022 21:53:43: 3000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:53:50: 6000000 INFO @ Sat, 15 Jan 2022 21:53:55: 4000000 INFO @ Sat, 15 Jan 2022 21:53:56: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:53:56: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:53:56: #1 total tags in treatment: 2854112 INFO @ Sat, 15 Jan 2022 21:53:56: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:53:56: #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 21:53:56: #1 tags after filtering in treatment: 2559638 INFO @ Sat, 15 Jan 2022 21:53:56: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 15 Jan 2022 21:53:56: #1 finished! INFO @ Sat, 15 Jan 2022 21:53:56: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:53:56: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:53:56: #2 number of paired peaks: 88 WARNING @ Sat, 15 Jan 2022 21:53:56: Too few paired peaks (88) 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 21:53:56: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.10_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/ERX4439553/ERX4439553.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:54:05: 5000000 INFO @ Sat, 15 Jan 2022 21:54:15: 6000000 INFO @ Sat, 15 Jan 2022 21:54:21: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:54:21: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:54:21: #1 total tags in treatment: 2854112 INFO @ Sat, 15 Jan 2022 21:54:21: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:54:21: #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 21:54:21: #1 tags after filtering in treatment: 2559638 INFO @ Sat, 15 Jan 2022 21:54:21: #1 Redundant rate of treatment: 0.10 INFO @ Sat, 15 Jan 2022 21:54:21: #1 finished! INFO @ Sat, 15 Jan 2022 21:54:21: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:54:21: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:54:21: #2 number of paired peaks: 88 WARNING @ Sat, 15 Jan 2022 21:54:21: Too few paired peaks (88) 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 21:54:21: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.20_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/ERX4439553/ERX4439553.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439553/ERX4439553.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling