Job ID = 16439394 SRX = SRX13453895 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 9210570 spots for SRR17276243/SRR17276243.sra Written 9210570 spots for SRR17276243/SRR17276243.sra fastq に変換しました。 bowtie でマッピング中... Your job 16439517 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:01 Multiseed full-index search: 00:19:30 9210570 reads; of these: 9210570 (100.00%) were paired; of these: 1033075 (11.22%) aligned concordantly 0 times 6202455 (67.34%) aligned concordantly exactly 1 time 1975040 (21.44%) aligned concordantly >1 times ---- 1033075 pairs aligned concordantly 0 times; of these: 495322 (47.95%) aligned discordantly 1 time ---- 537753 pairs aligned 0 times concordantly or discordantly; of these: 1075506 mates make up the pairs; of these: 432855 (40.25%) aligned 0 times 255022 (23.71%) aligned exactly 1 time 387629 (36.04%) aligned >1 times 97.65% overall alignment rate Time searching: 00:19:31 Overall time: 00:19:31 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 15 sequences. [bam_sort_core] merging from 8 files... [bam_rmdup_core] processing reference chr2L... [bam_rmdup_core] processing reference chr2LHet... [bam_rmdup_core] processing reference chr2R... [bam_rmdup_core] processing reference chr2RHet... [bam_rmdup_core] processing reference chr3L... [bam_rmdup_core] processing reference chr3LHet... [bam_rmdup_core] processing reference chr3R... [bam_rmdup_core] processing reference chr3RHet... [bam_rmdup_core] processing reference chr4... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrU... [bam_rmdup_core] processing reference chrUextra... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXHet... [bam_rmdup_core] processing reference chrYHet... [bam_rmdup_core] 91866 / 8633095 = 0.0106 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/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 15:29:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 02 Aug 2022 15:29:50: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:29:50: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:29:56: 1000000 INFO @ Tue, 02 Aug 2022 15:30:03: 2000000 INFO @ Tue, 02 Aug 2022 15:30:10: 3000000 INFO @ Tue, 02 Aug 2022 15:30:17: 4000000 WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 15:30:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 02 Aug 2022 15:30:20: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:30:20: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:30:24: 5000000 INFO @ Tue, 02 Aug 2022 15:30:27: 1000000 INFO @ Tue, 02 Aug 2022 15:30:31: 6000000 INFO @ Tue, 02 Aug 2022 15:30:34: 2000000 INFO @ Tue, 02 Aug 2022 15:30:38: 7000000 INFO @ Tue, 02 Aug 2022 15:30:40: 3000000 INFO @ Tue, 02 Aug 2022 15:30:44: 8000000 INFO @ Tue, 02 Aug 2022 15:30:47: 4000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.8.7/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Tue, 02 Aug 2022 15:30:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.bam'] # control file = None # effective genome size = 1.20e+08 # 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 @ Tue, 02 Aug 2022 15:30:50: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:30:50: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:30:51: 9000000 INFO @ Tue, 02 Aug 2022 15:30:54: 5000000 INFO @ Tue, 02 Aug 2022 15:30:57: 1000000 INFO @ Tue, 02 Aug 2022 15:30:58: 10000000 INFO @ Tue, 02 Aug 2022 15:31:01: 6000000 INFO @ Tue, 02 Aug 2022 15:31:04: 2000000 INFO @ Tue, 02 Aug 2022 15:31:05: 11000000 INFO @ Tue, 02 Aug 2022 15:31:08: 7000000 INFO @ Tue, 02 Aug 2022 15:31:11: 3000000 INFO @ Tue, 02 Aug 2022 15:31:12: 12000000 INFO @ Tue, 02 Aug 2022 15:31:15: 8000000 INFO @ Tue, 02 Aug 2022 15:31:18: 4000000 INFO @ Tue, 02 Aug 2022 15:31:19: 13000000 INFO @ Tue, 02 Aug 2022 15:31:21: 9000000 INFO @ Tue, 02 Aug 2022 15:31:25: 5000000 INFO @ Tue, 02 Aug 2022 15:31:27: 14000000 INFO @ Tue, 02 Aug 2022 15:31:28: 10000000 INFO @ Tue, 02 Aug 2022 15:31:32: 6000000 INFO @ Tue, 02 Aug 2022 15:31:34: 15000000 INFO @ Tue, 02 Aug 2022 15:31:35: 11000000 INFO @ Tue, 02 Aug 2022 15:31:39: 7000000 INFO @ Tue, 02 Aug 2022 15:31:41: 16000000 INFO @ Tue, 02 Aug 2022 15:31:42: 12000000 INFO @ Tue, 02 Aug 2022 15:31:47: 8000000 INFO @ Tue, 02 Aug 2022 15:31:48: 17000000 INFO @ Tue, 02 Aug 2022 15:31:49: 13000000 INFO @ Tue, 02 Aug 2022 15:31:54: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 15:31:54: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 15:31:54: #1 total tags in treatment: 8086432 INFO @ Tue, 02 Aug 2022 15:31:54: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:31:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 15:31:54: #1 tags after filtering in treatment: 7861286 INFO @ Tue, 02 Aug 2022 15:31:54: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 02 Aug 2022 15:31:54: #1 finished! INFO @ Tue, 02 Aug 2022 15:31:54: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:31:54: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:31:54: 9000000 INFO @ Tue, 02 Aug 2022 15:31:55: #2 number of paired peaks: 76 WARNING @ Tue, 02 Aug 2022 15:31:55: Too few paired peaks (76) 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 @ Tue, 02 Aug 2022 15:31:55: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.05_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/dm3/SRX13453895/SRX13453895.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 15:31:56: 14000000 INFO @ Tue, 02 Aug 2022 15:32:02: 10000000 INFO @ Tue, 02 Aug 2022 15:32:03: 15000000 INFO @ Tue, 02 Aug 2022 15:32:10: 16000000 INFO @ Tue, 02 Aug 2022 15:32:10: 11000000 INFO @ Tue, 02 Aug 2022 15:32:16: 17000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 15:32:17: 12000000 INFO @ Tue, 02 Aug 2022 15:32:22: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 15:32:22: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 15:32:22: #1 total tags in treatment: 8086432 INFO @ Tue, 02 Aug 2022 15:32:22: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:32:22: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 15:32:22: #1 tags after filtering in treatment: 7861286 INFO @ Tue, 02 Aug 2022 15:32:22: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 02 Aug 2022 15:32:22: #1 finished! INFO @ Tue, 02 Aug 2022 15:32:22: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:32:22: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:32:22: #2 number of paired peaks: 76 WARNING @ Tue, 02 Aug 2022 15:32:22: Too few paired peaks (76) 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 @ Tue, 02 Aug 2022 15:32:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.10_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/dm3/SRX13453895/SRX13453895.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 15:32:25: 13000000 INFO @ Tue, 02 Aug 2022 15:32:32: 14000000 INFO @ Tue, 02 Aug 2022 15:32:39: 15000000 INFO @ Tue, 02 Aug 2022 15:32:46: 16000000 INFO @ Tue, 02 Aug 2022 15:32:53: 17000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 15:32:59: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 15:32:59: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 15:32:59: #1 total tags in treatment: 8086432 INFO @ Tue, 02 Aug 2022 15:32:59: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:32:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 02 Aug 2022 15:32:59: #1 tags after filtering in treatment: 7861286 INFO @ Tue, 02 Aug 2022 15:32:59: #1 Redundant rate of treatment: 0.03 INFO @ Tue, 02 Aug 2022 15:32:59: #1 finished! INFO @ Tue, 02 Aug 2022 15:32:59: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:32:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:33:00: #2 number of paired peaks: 76 WARNING @ Tue, 02 Aug 2022 15:33:00: Too few paired peaks (76) 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 @ Tue, 02 Aug 2022 15:33:00: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.20_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/dm3/SRX13453895/SRX13453895.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453895/SRX13453895.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling