Job ID = 16439618 SRX = SRX11548846 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 20473302 spots for SRR15243017/SRR15243017.sra Written 20473302 spots for SRR15243017/SRR15243017.sra fastq に変換しました。 bowtie でマッピング中... Your job 16440018 ("srTdm6") has been submitted Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:49:16 20473302 reads; of these: 20473302 (100.00%) were paired; of these: 1567247 (7.66%) aligned concordantly 0 times 15672556 (76.55%) aligned concordantly exactly 1 time 3233499 (15.79%) aligned concordantly >1 times ---- 1567247 pairs aligned concordantly 0 times; of these: 100482 (6.41%) aligned discordantly 1 time ---- 1466765 pairs aligned 0 times concordantly or discordantly; of these: 2933530 mates make up the pairs; of these: 2426134 (82.70%) aligned 0 times 350222 (11.94%) aligned exactly 1 time 157174 (5.36%) aligned >1 times 94.07% overall alignment rate Time searching: 00:49:16 Overall time: 00:49:16 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 16 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] 563181 / 18584721 = 0.0303 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 16:52:24: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.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 16:52:24: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:52:24: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:52:33: 1000000 INFO @ Tue, 02 Aug 2022 16:52:41: 2000000 INFO @ Tue, 02 Aug 2022 16:52:49: 3000000 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 16:52:52: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.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 16:52:52: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:52:52: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:52:57: 4000000 INFO @ Tue, 02 Aug 2022 16:53:00: 1000000 INFO @ Tue, 02 Aug 2022 16:53:05: 5000000 INFO @ Tue, 02 Aug 2022 16:53:08: 2000000 INFO @ Tue, 02 Aug 2022 16:53:13: 6000000 INFO @ Tue, 02 Aug 2022 16:53:16: 3000000 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 16:53:22: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.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 16:53:22: #1 read tag files... INFO @ Tue, 02 Aug 2022 16:53:22: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 16:53:22: 7000000 INFO @ Tue, 02 Aug 2022 16:53:25: 4000000 INFO @ Tue, 02 Aug 2022 16:53:31: 8000000 INFO @ Tue, 02 Aug 2022 16:53:33: 5000000 INFO @ Tue, 02 Aug 2022 16:53:34: 1000000 INFO @ Tue, 02 Aug 2022 16:53:40: 9000000 INFO @ Tue, 02 Aug 2022 16:53:42: 6000000 INFO @ Tue, 02 Aug 2022 16:53:45: 2000000 INFO @ Tue, 02 Aug 2022 16:53:49: 10000000 INFO @ Tue, 02 Aug 2022 16:53:51: 7000000 INFO @ Tue, 02 Aug 2022 16:53:54: 3000000 INFO @ Tue, 02 Aug 2022 16:53:57: 11000000 INFO @ Tue, 02 Aug 2022 16:54:00: 8000000 INFO @ Tue, 02 Aug 2022 16:54:03: 4000000 INFO @ Tue, 02 Aug 2022 16:54:06: 12000000 INFO @ Tue, 02 Aug 2022 16:54:09: 9000000 INFO @ Tue, 02 Aug 2022 16:54:12: 5000000 INFO @ Tue, 02 Aug 2022 16:54:16: 13000000 INFO @ Tue, 02 Aug 2022 16:54:19: 10000000 INFO @ Tue, 02 Aug 2022 16:54:21: 6000000 INFO @ Tue, 02 Aug 2022 16:54:26: 14000000 INFO @ Tue, 02 Aug 2022 16:54:30: 11000000 INFO @ Tue, 02 Aug 2022 16:54:30: 7000000 INFO @ Tue, 02 Aug 2022 16:54:36: 15000000 INFO @ Tue, 02 Aug 2022 16:54:39: 12000000 INFO @ Tue, 02 Aug 2022 16:54:40: 8000000 INFO @ Tue, 02 Aug 2022 16:54:45: 16000000 INFO @ Tue, 02 Aug 2022 16:54:48: 13000000 INFO @ Tue, 02 Aug 2022 16:54:49: 9000000 INFO @ Tue, 02 Aug 2022 16:54:54: 17000000 INFO @ Tue, 02 Aug 2022 16:54:57: 14000000 INFO @ Tue, 02 Aug 2022 16:54:58: 10000000 INFO @ Tue, 02 Aug 2022 16:55:03: 18000000 INFO @ Tue, 02 Aug 2022 16:55:06: 15000000 INFO @ Tue, 02 Aug 2022 16:55:08: 11000000 INFO @ Tue, 02 Aug 2022 16:55:12: 19000000 INFO @ Tue, 02 Aug 2022 16:55:15: 16000000 INFO @ Tue, 02 Aug 2022 16:55:17: 12000000 INFO @ Tue, 02 Aug 2022 16:55:21: 20000000 INFO @ Tue, 02 Aug 2022 16:55:25: 17000000 INFO @ Tue, 02 Aug 2022 16:55:27: 13000000 INFO @ Tue, 02 Aug 2022 16:55:30: 21000000 INFO @ Tue, 02 Aug 2022 16:55:33: 18000000 INFO @ Tue, 02 Aug 2022 16:55:36: 14000000 INFO @ Tue, 02 Aug 2022 16:55:39: 22000000 INFO @ Tue, 02 Aug 2022 16:55:42: 19000000 INFO @ Tue, 02 Aug 2022 16:55:45: 15000000 INFO @ Tue, 02 Aug 2022 16:55:48: 23000000 INFO @ Tue, 02 Aug 2022 16:55:51: 20000000 INFO @ Tue, 02 Aug 2022 16:55:54: 16000000 INFO @ Tue, 02 Aug 2022 16:55:57: 24000000 INFO @ Tue, 02 Aug 2022 16:56:00: 21000000 INFO @ Tue, 02 Aug 2022 16:56:04: 17000000 INFO @ Tue, 02 Aug 2022 16:56:06: 25000000 INFO @ Tue, 02 Aug 2022 16:56:09: 22000000 INFO @ Tue, 02 Aug 2022 16:56:13: 18000000 INFO @ Tue, 02 Aug 2022 16:56:15: 26000000 INFO @ Tue, 02 Aug 2022 16:56:19: 23000000 INFO @ Tue, 02 Aug 2022 16:56:22: 19000000 INFO @ Tue, 02 Aug 2022 16:56:24: 27000000 INFO @ Tue, 02 Aug 2022 16:56:27: 24000000 INFO @ Tue, 02 Aug 2022 16:56:31: 20000000 INFO @ Tue, 02 Aug 2022 16:56:33: 28000000 INFO @ Tue, 02 Aug 2022 16:56:36: 25000000 INFO @ Tue, 02 Aug 2022 16:56:41: 21000000 INFO @ Tue, 02 Aug 2022 16:56:42: 29000000 INFO @ Tue, 02 Aug 2022 16:56:45: 26000000 INFO @ Tue, 02 Aug 2022 16:56:50: 22000000 INFO @ Tue, 02 Aug 2022 16:56:51: 30000000 INFO @ Tue, 02 Aug 2022 16:56:54: 27000000 INFO @ Tue, 02 Aug 2022 16:57:00: 23000000 INFO @ Tue, 02 Aug 2022 16:57:01: 31000000 INFO @ Tue, 02 Aug 2022 16:57:04: 28000000 INFO @ Tue, 02 Aug 2022 16:57:10: 24000000 INFO @ Tue, 02 Aug 2022 16:57:11: 32000000 INFO @ Tue, 02 Aug 2022 16:57:14: 29000000 INFO @ Tue, 02 Aug 2022 16:57:20: 25000000 BedGraph に変換しました。 BigWig に変換中... INFO @ Tue, 02 Aug 2022 16:57:22: 33000000 INFO @ Tue, 02 Aug 2022 16:57:25: 30000000 INFO @ Tue, 02 Aug 2022 16:57:31: 26000000 INFO @ Tue, 02 Aug 2022 16:57:32: 34000000 INFO @ Tue, 02 Aug 2022 16:57:35: 31000000 INFO @ Tue, 02 Aug 2022 16:57:41: 27000000 INFO @ Tue, 02 Aug 2022 16:57:41: 35000000 INFO @ Tue, 02 Aug 2022 16:57:45: 32000000 INFO @ Tue, 02 Aug 2022 16:57:51: 36000000 INFO @ Tue, 02 Aug 2022 16:57:52: 28000000 INFO @ Tue, 02 Aug 2022 16:57:55: 33000000 INFO @ Tue, 02 Aug 2022 16:58:01: 37000000 INFO @ Tue, 02 Aug 2022 16:58:02: 29000000 INFO @ Tue, 02 Aug 2022 16:58:05: 34000000 INFO @ Tue, 02 Aug 2022 16:58:05: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:58:05: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:58:05: #1 total tags in treatment: 18343573 INFO @ Tue, 02 Aug 2022 16:58:05: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:58:05: #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 16:58:05: #1 tags after filtering in treatment: 17344015 INFO @ Tue, 02 Aug 2022 16:58:05: #1 Redundant rate of treatment: 0.05 INFO @ Tue, 02 Aug 2022 16:58:05: #1 finished! INFO @ Tue, 02 Aug 2022 16:58:05: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:58:05: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:58:07: #2 number of paired peaks: 30 WARNING @ Tue, 02 Aug 2022 16:58:07: Too few paired peaks (30) 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 16:58:07: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.05_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/dm3/SRX11548846/SRX11548846.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:58:12: 30000000 INFO @ Tue, 02 Aug 2022 16:58:13: 35000000 INFO @ Tue, 02 Aug 2022 16:58:22: 31000000 INFO @ Tue, 02 Aug 2022 16:58:22: 36000000 INFO @ Tue, 02 Aug 2022 16:58:31: 32000000 INFO @ Tue, 02 Aug 2022 16:58:32: 37000000 INFO @ Tue, 02 Aug 2022 16:58:35: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:58:35: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:58:35: #1 total tags in treatment: 18343573 INFO @ Tue, 02 Aug 2022 16:58:35: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:58:35: #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 16:58:36: #1 tags after filtering in treatment: 17344015 INFO @ Tue, 02 Aug 2022 16:58:36: #1 Redundant rate of treatment: 0.05 INFO @ Tue, 02 Aug 2022 16:58:36: #1 finished! INFO @ Tue, 02 Aug 2022 16:58:36: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:58:36: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:58:37: #2 number of paired peaks: 30 WARNING @ Tue, 02 Aug 2022 16:58:37: Too few paired peaks (30) 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 16:58:37: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.10_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/SRX11548846/SRX11548846.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 16:58:40: 33000000 INFO @ Tue, 02 Aug 2022 16:58:49: 34000000 INFO @ Tue, 02 Aug 2022 16:58:58: 35000000 INFO @ Tue, 02 Aug 2022 16:59:07: 36000000 BigWig に変換しました。 INFO @ Tue, 02 Aug 2022 16:59:17: 37000000 INFO @ Tue, 02 Aug 2022 16:59:21: #1 tag size is determined as 75 bps INFO @ Tue, 02 Aug 2022 16:59:21: #1 tag size = 75 INFO @ Tue, 02 Aug 2022 16:59:21: #1 total tags in treatment: 18343573 INFO @ Tue, 02 Aug 2022 16:59:21: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 16:59:21: #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 16:59:21: #1 tags after filtering in treatment: 17344015 INFO @ Tue, 02 Aug 2022 16:59:21: #1 Redundant rate of treatment: 0.05 INFO @ Tue, 02 Aug 2022 16:59:21: #1 finished! INFO @ Tue, 02 Aug 2022 16:59:21: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 16:59:21: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 16:59:22: #2 number of paired peaks: 30 WARNING @ Tue, 02 Aug 2022 16:59:22: Too few paired peaks (30) 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 16:59:22: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.20_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/dm3/SRX11548846/SRX11548846.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX11548846/SRX11548846.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling