Job ID = 14519711 SRX = SRX8586260 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 35075836 spots for SRR12057929/SRR12057929.sra Written 35075836 spots for SRR12057929/SRR12057929.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: 00:20:36 35075836 reads; of these: 35075836 (100.00%) were paired; of these: 8984023 (25.61%) aligned concordantly 0 times 22178003 (63.23%) aligned concordantly exactly 1 time 3913810 (11.16%) aligned concordantly >1 times ---- 8984023 pairs aligned concordantly 0 times; of these: 75347 (0.84%) aligned discordantly 1 time ---- 8908676 pairs aligned 0 times concordantly or discordantly; of these: 17817352 mates make up the pairs; of these: 17301822 (97.11%) aligned 0 times 383356 (2.15%) aligned exactly 1 time 132174 (0.74%) aligned >1 times 75.34% overall alignment rate Time searching: 00:20:36 Overall time: 00:20:36 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 16 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] 9771777 / 26163110 = 0.3735 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 18:06:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.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 18:06:12: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:06:12: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:06:20: 1000000 INFO @ Sat, 15 Jan 2022 18:06:28: 2000000 INFO @ Sat, 15 Jan 2022 18:06:35: 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 18:06:42: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.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 18:06:42: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:06:42: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:06:42: 4000000 INFO @ Sat, 15 Jan 2022 18:06:50: 1000000 INFO @ Sat, 15 Jan 2022 18:06:50: 5000000 INFO @ Sat, 15 Jan 2022 18:06:58: 2000000 INFO @ Sat, 15 Jan 2022 18:06:58: 6000000 INFO @ Sat, 15 Jan 2022 18:07:05: 3000000 INFO @ Sat, 15 Jan 2022 18:07:05: 7000000 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 18:07:12: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.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 18:07:12: #1 read tag files... INFO @ Sat, 15 Jan 2022 18:07:12: #1 read treatment tags... INFO @ Sat, 15 Jan 2022 18:07:12: 8000000 INFO @ Sat, 15 Jan 2022 18:07:13: 4000000 INFO @ Sat, 15 Jan 2022 18:07:19: 9000000 INFO @ Sat, 15 Jan 2022 18:07:19: 1000000 INFO @ Sat, 15 Jan 2022 18:07:22: 5000000 INFO @ Sat, 15 Jan 2022 18:07:26: 10000000 INFO @ Sat, 15 Jan 2022 18:07:26: 2000000 INFO @ Sat, 15 Jan 2022 18:07:29: 6000000 INFO @ Sat, 15 Jan 2022 18:07:33: 11000000 INFO @ Sat, 15 Jan 2022 18:07:34: 3000000 INFO @ Sat, 15 Jan 2022 18:07:37: 7000000 INFO @ Sat, 15 Jan 2022 18:07:40: 12000000 INFO @ Sat, 15 Jan 2022 18:07:41: 4000000 INFO @ Sat, 15 Jan 2022 18:07:44: 8000000 INFO @ Sat, 15 Jan 2022 18:07:47: 13000000 INFO @ Sat, 15 Jan 2022 18:07:49: 5000000 INFO @ Sat, 15 Jan 2022 18:07:51: 9000000 INFO @ Sat, 15 Jan 2022 18:07:53: 14000000 INFO @ Sat, 15 Jan 2022 18:07:56: 6000000 INFO @ Sat, 15 Jan 2022 18:07:59: 10000000 INFO @ Sat, 15 Jan 2022 18:08:00: 15000000 INFO @ Sat, 15 Jan 2022 18:08:04: 7000000 INFO @ Sat, 15 Jan 2022 18:08:06: 11000000 INFO @ Sat, 15 Jan 2022 18:08:07: 16000000 INFO @ Sat, 15 Jan 2022 18:08:11: 8000000 INFO @ Sat, 15 Jan 2022 18:08:14: 17000000 INFO @ Sat, 15 Jan 2022 18:08:14: 12000000 INFO @ Sat, 15 Jan 2022 18:08:18: 9000000 INFO @ Sat, 15 Jan 2022 18:08:21: 18000000 INFO @ Sat, 15 Jan 2022 18:08:22: 13000000 INFO @ Sat, 15 Jan 2022 18:08:25: 10000000 INFO @ Sat, 15 Jan 2022 18:08:28: 19000000 INFO @ Sat, 15 Jan 2022 18:08:31: 14000000 INFO @ Sat, 15 Jan 2022 18:08:32: 11000000 INFO @ Sat, 15 Jan 2022 18:08:35: 20000000 INFO @ Sat, 15 Jan 2022 18:08:39: 15000000 INFO @ Sat, 15 Jan 2022 18:08:40: 12000000 INFO @ Sat, 15 Jan 2022 18:08:42: 21000000 INFO @ Sat, 15 Jan 2022 18:08:46: 16000000 INFO @ Sat, 15 Jan 2022 18:08:47: 13000000 INFO @ Sat, 15 Jan 2022 18:08:49: 22000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 15 Jan 2022 18:08:53: 17000000 INFO @ Sat, 15 Jan 2022 18:08:54: 14000000 INFO @ Sat, 15 Jan 2022 18:08:56: 23000000 INFO @ Sat, 15 Jan 2022 18:09:01: 18000000 INFO @ Sat, 15 Jan 2022 18:09:02: 15000000 INFO @ Sat, 15 Jan 2022 18:09:03: 24000000 INFO @ Sat, 15 Jan 2022 18:09:08: 19000000 BigWig に変換しました。 INFO @ Sat, 15 Jan 2022 18:09:09: 16000000 INFO @ Sat, 15 Jan 2022 18:09:10: 25000000 INFO @ Sat, 15 Jan 2022 18:09:15: 20000000 INFO @ Sat, 15 Jan 2022 18:09:17: 17000000 INFO @ Sat, 15 Jan 2022 18:09:17: 26000000 INFO @ Sat, 15 Jan 2022 18:09:23: 21000000 INFO @ Sat, 15 Jan 2022 18:09:24: 27000000 INFO @ Sat, 15 Jan 2022 18:09:24: 18000000 INFO @ Sat, 15 Jan 2022 18:09:30: 22000000 INFO @ Sat, 15 Jan 2022 18:09:31: 28000000 INFO @ Sat, 15 Jan 2022 18:09:31: 19000000 INFO @ Sat, 15 Jan 2022 18:09:38: 23000000 INFO @ Sat, 15 Jan 2022 18:09:38: 29000000 INFO @ Sat, 15 Jan 2022 18:09:39: 20000000 INFO @ Sat, 15 Jan 2022 18:09:45: 24000000 INFO @ Sat, 15 Jan 2022 18:09:45: 30000000 INFO @ Sat, 15 Jan 2022 18:09:46: 21000000 INFO @ Sat, 15 Jan 2022 18:09:52: 31000000 INFO @ Sat, 15 Jan 2022 18:09:52: 25000000 INFO @ Sat, 15 Jan 2022 18:09:54: 22000000 INFO @ Sat, 15 Jan 2022 18:09:59: 32000000 INFO @ Sat, 15 Jan 2022 18:10:00: 26000000 INFO @ Sat, 15 Jan 2022 18:10:01: 23000000 INFO @ Sat, 15 Jan 2022 18:10:06: 33000000 INFO @ Sat, 15 Jan 2022 18:10:07: 27000000 INFO @ Sat, 15 Jan 2022 18:10:09: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 18:10:09: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 18:10:09: #1 total tags in treatment: 16335160 INFO @ Sat, 15 Jan 2022 18:10:09: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:10:09: #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 18:10:09: 24000000 INFO @ Sat, 15 Jan 2022 18:10:09: #1 tags after filtering in treatment: 10098056 INFO @ Sat, 15 Jan 2022 18:10:09: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 15 Jan 2022 18:10:09: #1 finished! INFO @ Sat, 15 Jan 2022 18:10:09: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:10:09: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:10:09: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 18:10:09: Too few paired peaks (0) 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 18:10:09: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.05_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/SRX8586260/SRX8586260.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:10:15: 28000000 INFO @ Sat, 15 Jan 2022 18:10:16: 25000000 INFO @ Sat, 15 Jan 2022 18:10:22: 29000000 INFO @ Sat, 15 Jan 2022 18:10:23: 26000000 INFO @ Sat, 15 Jan 2022 18:10:29: 30000000 INFO @ Sat, 15 Jan 2022 18:10:30: 27000000 INFO @ Sat, 15 Jan 2022 18:10:36: 31000000 INFO @ Sat, 15 Jan 2022 18:10:37: 28000000 INFO @ Sat, 15 Jan 2022 18:10:43: 32000000 INFO @ Sat, 15 Jan 2022 18:10:45: 29000000 INFO @ Sat, 15 Jan 2022 18:10:50: 33000000 INFO @ Sat, 15 Jan 2022 18:10:52: 30000000 INFO @ Sat, 15 Jan 2022 18:10:52: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 18:10:52: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 18:10:52: #1 total tags in treatment: 16335160 INFO @ Sat, 15 Jan 2022 18:10:52: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:10:52: #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 18:10:53: #1 tags after filtering in treatment: 10098056 INFO @ Sat, 15 Jan 2022 18:10:53: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 15 Jan 2022 18:10:53: #1 finished! INFO @ Sat, 15 Jan 2022 18:10:53: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:10:53: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:10:53: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 18:10:53: Too few paired peaks (0) 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 18:10:53: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.10_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/SRX8586260/SRX8586260.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 15 Jan 2022 18:10:59: 31000000 INFO @ Sat, 15 Jan 2022 18:11:06: 32000000 INFO @ Sat, 15 Jan 2022 18:11:13: 33000000 INFO @ Sat, 15 Jan 2022 18:11:15: #1 tag size is determined as 40 bps INFO @ Sat, 15 Jan 2022 18:11:15: #1 tag size = 40 INFO @ Sat, 15 Jan 2022 18:11:15: #1 total tags in treatment: 16335160 INFO @ Sat, 15 Jan 2022 18:11:15: #1 user defined the maximum tags... INFO @ Sat, 15 Jan 2022 18:11:15: #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 18:11:15: #1 tags after filtering in treatment: 10098056 INFO @ Sat, 15 Jan 2022 18:11:15: #1 Redundant rate of treatment: 0.38 INFO @ Sat, 15 Jan 2022 18:11:15: #1 finished! INFO @ Sat, 15 Jan 2022 18:11:15: #2 Build Peak Model... INFO @ Sat, 15 Jan 2022 18:11:15: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 15 Jan 2022 18:11:16: #2 number of paired peaks: 0 WARNING @ Sat, 15 Jan 2022 18:11:16: Too few paired peaks (0) 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 18:11:16: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.20_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/SRX8586260/SRX8586260.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX8586260/SRX8586260.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling