Job ID = 12531669 SRX = SRX4555041 Genome = sacCer3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 16081964 spots for SRR7696738/SRR7696738.sra Written 16081964 spots for SRR7696738/SRR7696738.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: 00:19:09 16081964 reads; of these: 16081964 (100.00%) were paired; of these: 951006 (5.91%) aligned concordantly 0 times 7792503 (48.45%) aligned concordantly exactly 1 time 7338455 (45.63%) aligned concordantly >1 times ---- 951006 pairs aligned concordantly 0 times; of these: 61059 (6.42%) aligned discordantly 1 time ---- 889947 pairs aligned 0 times concordantly or discordantly; of these: 1779894 mates make up the pairs; of these: 1387925 (77.98%) aligned 0 times 209811 (11.79%) aligned exactly 1 time 182158 (10.23%) aligned >1 times 95.68% overall alignment rate Time searching: 00:19:09 Overall time: 00:19:09 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 24 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] 3120247 / 7145620 = 0.4367 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/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:33:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.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, 17 Apr 2021 09:33:15: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:33:15: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:33:22: 1000000 INFO @ Sat, 17 Apr 2021 09:33:29: 2000000 INFO @ Sat, 17 Apr 2021 09:33:36: 3000000 WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:33:43: 4000000 INFO @ Sat, 17 Apr 2021 09:33:45: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.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, 17 Apr 2021 09:33:45: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:33:45: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:33:51: 5000000 INFO @ Sat, 17 Apr 2021 09:33:59: 6000000 INFO @ Sat, 17 Apr 2021 09:34:05: 1000000 INFO @ Sat, 17 Apr 2021 09:34:08: 7000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.7.1/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Sat, 17 Apr 2021 09:34:15: # Command line: callpeak -t /home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.bam -f BAM -g 12100000 -n /home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.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, 17 Apr 2021 09:34:15: #1 read tag files... INFO @ Sat, 17 Apr 2021 09:34:15: #1 read treatment tags... INFO @ Sat, 17 Apr 2021 09:34:16: 8000000 INFO @ Sat, 17 Apr 2021 09:34:23: 2000000 INFO @ Sat, 17 Apr 2021 09:34:23: 1000000 INFO @ Sat, 17 Apr 2021 09:34:25: 9000000 INFO @ Sat, 17 Apr 2021 09:34:32: 2000000 INFO @ Sat, 17 Apr 2021 09:34:34: 10000000 INFO @ Sat, 17 Apr 2021 09:34:40: 3000000 INFO @ Sat, 17 Apr 2021 09:34:41: 3000000 INFO @ Sat, 17 Apr 2021 09:34:42: 11000000 INFO @ Sat, 17 Apr 2021 09:34:50: 12000000 INFO @ Sat, 17 Apr 2021 09:34:51: 4000000 INFO @ Sat, 17 Apr 2021 09:34:56: 4000000 INFO @ Sat, 17 Apr 2021 09:34:59: 13000000 INFO @ Sat, 17 Apr 2021 09:34:59: 5000000 INFO @ Sat, 17 Apr 2021 09:35:07: 14000000 INFO @ Sat, 17 Apr 2021 09:35:08: 6000000 INFO @ Sat, 17 Apr 2021 09:35:13: 5000000 INFO @ Sat, 17 Apr 2021 09:35:15: 15000000 INFO @ Sat, 17 Apr 2021 09:35:17: 7000000 INFO @ Sat, 17 Apr 2021 09:35:24: 16000000 INFO @ Sat, 17 Apr 2021 09:35:26: 8000000 INFO @ Sat, 17 Apr 2021 09:35:28: 6000000 INFO @ Sat, 17 Apr 2021 09:35:32: 17000000 INFO @ Sat, 17 Apr 2021 09:35:35: 9000000 INFO @ Sat, 17 Apr 2021 09:35:40: 18000000 INFO @ Sat, 17 Apr 2021 09:35:43: 7000000 INFO @ Sat, 17 Apr 2021 09:35:44: 10000000 INFO @ Sat, 17 Apr 2021 09:35:48: 19000000 INFO @ Sat, 17 Apr 2021 09:35:52: 11000000 INFO @ Sat, 17 Apr 2021 09:35:57: 20000000 INFO @ Sat, 17 Apr 2021 09:36:00: 12000000 INFO @ Sat, 17 Apr 2021 09:36:01: 8000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Sat, 17 Apr 2021 09:36:06: 21000000 INFO @ Sat, 17 Apr 2021 09:36:09: 13000000 BigWig に変換しました。 INFO @ Sat, 17 Apr 2021 09:36:15: 22000000 INFO @ Sat, 17 Apr 2021 09:36:17: 14000000 INFO @ Sat, 17 Apr 2021 09:36:17: 9000000 INFO @ Sat, 17 Apr 2021 09:36:24: 23000000 INFO @ Sat, 17 Apr 2021 09:36:25: 15000000 INFO @ Sat, 17 Apr 2021 09:36:32: 24000000 INFO @ Sat, 17 Apr 2021 09:36:33: 10000000 INFO @ Sat, 17 Apr 2021 09:36:33: 16000000 INFO @ Sat, 17 Apr 2021 09:36:37: #1 tag size is determined as 86 bps INFO @ Sat, 17 Apr 2021 09:36:37: #1 tag size = 86 INFO @ Sat, 17 Apr 2021 09:36:37: #1 total tags in treatment: 12015069 INFO @ Sat, 17 Apr 2021 09:36:37: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:36:37: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:36:38: #1 tags after filtering in treatment: 2848239 INFO @ Sat, 17 Apr 2021 09:36:38: #1 Redundant rate of treatment: 0.76 INFO @ Sat, 17 Apr 2021 09:36:38: #1 finished! INFO @ Sat, 17 Apr 2021 09:36:38: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:36:38: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:36:38: #2 number of paired peaks: 48 WARNING @ Sat, 17 Apr 2021 09:36:38: Too few paired peaks (48) 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, 17 Apr 2021 09:36:38: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.05_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 6 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:36:41: 17000000 INFO @ Sat, 17 Apr 2021 09:36:48: 11000000 INFO @ Sat, 17 Apr 2021 09:36:49: 18000000 INFO @ Sat, 17 Apr 2021 09:36:58: 19000000 INFO @ Sat, 17 Apr 2021 09:37:03: 12000000 INFO @ Sat, 17 Apr 2021 09:37:06: 20000000 INFO @ Sat, 17 Apr 2021 09:37:15: 21000000 INFO @ Sat, 17 Apr 2021 09:37:21: 13000000 INFO @ Sat, 17 Apr 2021 09:37:23: 22000000 INFO @ Sat, 17 Apr 2021 09:37:32: 23000000 INFO @ Sat, 17 Apr 2021 09:37:36: 14000000 INFO @ Sat, 17 Apr 2021 09:37:41: 24000000 INFO @ Sat, 17 Apr 2021 09:37:46: #1 tag size is determined as 86 bps INFO @ Sat, 17 Apr 2021 09:37:46: #1 tag size = 86 INFO @ Sat, 17 Apr 2021 09:37:46: #1 total tags in treatment: 12015069 INFO @ Sat, 17 Apr 2021 09:37:46: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:37:46: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:37:46: #1 tags after filtering in treatment: 2848239 INFO @ Sat, 17 Apr 2021 09:37:46: #1 Redundant rate of treatment: 0.76 INFO @ Sat, 17 Apr 2021 09:37:46: #1 finished! INFO @ Sat, 17 Apr 2021 09:37:46: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:37:46: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:37:46: #2 number of paired peaks: 48 WARNING @ Sat, 17 Apr 2021 09:37:46: Too few paired peaks (48) 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, 17 Apr 2021 09:37:46: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.20_peaks.narrowPeak: No such file or directory pass1 - making usageList (0 chroms): 2 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Sat, 17 Apr 2021 09:37:52: 15000000 INFO @ Sat, 17 Apr 2021 09:38:05: 16000000 INFO @ Sat, 17 Apr 2021 09:38:17: 17000000 INFO @ Sat, 17 Apr 2021 09:38:30: 18000000 INFO @ Sat, 17 Apr 2021 09:38:45: 19000000 INFO @ Sat, 17 Apr 2021 09:38:56: 20000000 INFO @ Sat, 17 Apr 2021 09:39:14: 21000000 INFO @ Sat, 17 Apr 2021 09:39:32: 22000000 INFO @ Sat, 17 Apr 2021 09:39:45: 23000000 INFO @ Sat, 17 Apr 2021 09:39:58: 24000000 INFO @ Sat, 17 Apr 2021 09:40:05: #1 tag size is determined as 86 bps INFO @ Sat, 17 Apr 2021 09:40:05: #1 tag size = 86 INFO @ Sat, 17 Apr 2021 09:40:05: #1 total tags in treatment: 12015069 INFO @ Sat, 17 Apr 2021 09:40:05: #1 user defined the maximum tags... INFO @ Sat, 17 Apr 2021 09:40:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Sat, 17 Apr 2021 09:40:05: #1 tags after filtering in treatment: 2848239 INFO @ Sat, 17 Apr 2021 09:40:05: #1 Redundant rate of treatment: 0.76 INFO @ Sat, 17 Apr 2021 09:40:05: #1 finished! INFO @ Sat, 17 Apr 2021 09:40:05: #2 Build Peak Model... INFO @ Sat, 17 Apr 2021 09:40:05: #2 looking for paired plus/minus strand peaks... INFO @ Sat, 17 Apr 2021 09:40:05: #2 number of paired peaks: 48 WARNING @ Sat, 17 Apr 2021 09:40:05: Too few paired peaks (48) 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, 17 Apr 2021 09:40:05: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.10_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/SRX4555041/SRX4555041.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/sacCer3/SRX4555041/SRX4555041.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling