Job ID = 14521744 SRX = ERX4439634 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 7888780 spots for ERR4501563/ERR4501563.sra Written 7888780 spots for ERR4501563/ERR4501563.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: 00:08:49 7888780 reads; of these: 7888780 (100.00%) were paired; of these: 1532885 (19.43%) aligned concordantly 0 times 5741795 (72.78%) aligned concordantly exactly 1 time 614100 (7.78%) aligned concordantly >1 times ---- 1532885 pairs aligned concordantly 0 times; of these: 788417 (51.43%) aligned discordantly 1 time ---- 744468 pairs aligned 0 times concordantly or discordantly; of these: 1488936 mates make up the pairs; of these: 1238253 (83.16%) aligned 0 times 95532 (6.42%) aligned exactly 1 time 155151 (10.42%) aligned >1 times 92.15% overall alignment rate Time searching: 00:08:49 Overall time: 00:08:49 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] 1706776 / 7079280 = 0.2411 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 21:50:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.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 21:50:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:50:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:51:10: 1000000 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 21:51:24: 2000000 INFO @ Sat, 15 Jan 2022 21:51:26: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.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 21:51:26: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:51:26: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:51:38: 3000000 INFO @ Sat, 15 Jan 2022 21:51:38: 1000000 INFO @ Sat, 15 Jan 2022 21:51:51: 2000000 INFO @ Sat, 15 Jan 2022 21:51:52: 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 21:51:56: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.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 21:51:56: #1 read tag files... INFO @ Sat, 15 Jan 2022 21:51:56: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 21:52:03: 3000000 INFO @ Sat, 15 Jan 2022 21:52:06: 5000000 INFO @ Sat, 15 Jan 2022 21:52:11: 1000000 INFO @ Sat, 15 Jan 2022 21:52:16: 4000000 INFO @ Sat, 15 Jan 2022 21:52:20: 6000000 INFO @ Sat, 15 Jan 2022 21:52:25: 2000000 INFO @ Sat, 15 Jan 2022 21:52:28: 5000000 INFO @ Sat, 15 Jan 2022 21:52:34: 7000000 INFO @ Sat, 15 Jan 2022 21:52:39: 3000000 INFO @ Sat, 15 Jan 2022 21:52:40: 6000000 INFO @ Sat, 15 Jan 2022 21:52:48: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 21:52:53: 4000000 INFO @ Sat, 15 Jan 2022 21:52:53: 7000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 21:53:02: 9000000 INFO @ Sat, 15 Jan 2022 21:53:05: 8000000 INFO @ Sat, 15 Jan 2022 21:53:07: 5000000 INFO @ Sat, 15 Jan 2022 21:53:17: 10000000 INFO @ Sat, 15 Jan 2022 21:53:18: 9000000 INFO @ Sat, 15 Jan 2022 21:53:21: 6000000 INFO @ Sat, 15 Jan 2022 21:53:30: 10000000 INFO @ Sat, 15 Jan 2022 21:53:31: 11000000 INFO @ Sat, 15 Jan 2022 21:53:32: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:53:32: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:53:32: #1 total tags in treatment: 4740021 INFO @ Sat, 15 Jan 2022 21:53:32: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:53:32: #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 21:53:32: #1 tags after filtering in treatment: 2472225 INFO @ Sat, 15 Jan 2022 21:53:32: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 15 Jan 2022 21:53:32: #1 finished! INFO @ Sat, 15 Jan 2022 21:53:32: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:53:32: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:53:32: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:53:32: Too few paired peaks (28) 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 21:53:32: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.05_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/ERX4439634/ERX4439634.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:53:35: 7000000 INFO @ Sat, 15 Jan 2022 21:53:42: 11000000 INFO @ Sat, 15 Jan 2022 21:53:43: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:53:43: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:53:43: #1 total tags in treatment: 4740021 INFO @ Sat, 15 Jan 2022 21:53:43: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:53:43: #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 21:53:43: #1 tags after filtering in treatment: 2472225 INFO @ Sat, 15 Jan 2022 21:53:43: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 15 Jan 2022 21:53:43: #1 finished! INFO @ Sat, 15 Jan 2022 21:53:43: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:53:43: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:53:44: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:53:44: Too few paired peaks (28) 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 21:53:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.10_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/ERX4439634/ERX4439634.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 21:53:48: 8000000 INFO @ Sat, 15 Jan 2022 21:54:02: 9000000 INFO @ Sat, 15 Jan 2022 21:54:16: 10000000 INFO @ Sat, 15 Jan 2022 21:54:29: 11000000 INFO @ Sat, 15 Jan 2022 21:54:30: #1 tag size is determined as 100 bps INFO @ Sat, 15 Jan 2022 21:54:30: #1 tag size = 100 INFO @ Sat, 15 Jan 2022 21:54:30: #1 total tags in treatment: 4740021 INFO @ Sat, 15 Jan 2022 21:54:30: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 21:54:30: #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 21:54:30: #1 tags after filtering in treatment: 2472225 INFO @ Sat, 15 Jan 2022 21:54:30: #1 Redundant rate of treatment: 0.48 INFO @ Sat, 15 Jan 2022 21:54:30: #1 finished! INFO @ Sat, 15 Jan 2022 21:54:30: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 21:54:30: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 21:54:31: #2 number of paired peaks: 28 WARNING @ Sat, 15 Jan 2022 21:54:31: Too few paired peaks (28) 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 21:54:31: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.20_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/ERX4439634/ERX4439634.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/ERX4439634/ERX4439634.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling