Job ID = 16439346 SRX = SRX13453878 Genome = dm3 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... Read 8612343 spots for SRR17276260/SRR17276260.sra Written 8612343 spots for SRR17276260/SRR17276260.sra fastq に変換しました。 bowtie でマッピング中... Your job 16439486 ("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: 00:19:03 8612343 reads; of these: 8612343 (100.00%) were paired; of these: 700262 (8.13%) aligned concordantly 0 times 6759276 (78.48%) aligned concordantly exactly 1 time 1152805 (13.39%) aligned concordantly >1 times ---- 700262 pairs aligned concordantly 0 times; of these: 169581 (24.22%) aligned discordantly 1 time ---- 530681 pairs aligned 0 times concordantly or discordantly; of these: 1061362 mates make up the pairs; of these: 691128 (65.12%) aligned 0 times 256885 (24.20%) aligned exactly 1 time 113349 (10.68%) aligned >1 times 95.99% overall alignment rate Time searching: 00:19:03 Overall time: 00:19:03 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] 62847 / 8040279 = 0.0078 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 15:25:28: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.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 15:25:28: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:25:28: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:25:36: 1000000 INFO @ Tue, 02 Aug 2022 15:25:44: 2000000 INFO @ Tue, 02 Aug 2022 15:25:52: 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 15:25:59: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.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 15:25:59: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:25:59: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:25:59: 4000000 INFO @ Tue, 02 Aug 2022 15:26:06: 1000000 INFO @ Tue, 02 Aug 2022 15:26:08: 5000000 INFO @ Tue, 02 Aug 2022 15:26:13: 2000000 INFO @ Tue, 02 Aug 2022 15:26:15: 6000000 INFO @ Tue, 02 Aug 2022 15:26:20: 3000000 INFO @ Tue, 02 Aug 2022 15:26:23: 7000000 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 15:26:27: # Command line: callpeak -t /home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.bam -f BAM -g dm -n /home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.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 15:26:27: #1 read tag files... INFO @ Tue, 02 Aug 2022 15:26:27: #1 read treatment tags... INFO @ Tue, 02 Aug 2022 15:26:28: 4000000 INFO @ Tue, 02 Aug 2022 15:26:31: 8000000 INFO @ Tue, 02 Aug 2022 15:26:36: 1000000 INFO @ Tue, 02 Aug 2022 15:26:36: 5000000 INFO @ Tue, 02 Aug 2022 15:26:39: 9000000 INFO @ Tue, 02 Aug 2022 15:26:44: 2000000 INFO @ Tue, 02 Aug 2022 15:26:45: 6000000 INFO @ Tue, 02 Aug 2022 15:26:46: 10000000 INFO @ Tue, 02 Aug 2022 15:26:52: 3000000 INFO @ Tue, 02 Aug 2022 15:26:54: 7000000 INFO @ Tue, 02 Aug 2022 15:26:54: 11000000 INFO @ Tue, 02 Aug 2022 15:26:59: 4000000 INFO @ Tue, 02 Aug 2022 15:27:02: 12000000 INFO @ Tue, 02 Aug 2022 15:27:02: 8000000 INFO @ Tue, 02 Aug 2022 15:27:07: 5000000 INFO @ Tue, 02 Aug 2022 15:27:10: 13000000 INFO @ Tue, 02 Aug 2022 15:27:11: 9000000 INFO @ Tue, 02 Aug 2022 15:27:16: 6000000 INFO @ Tue, 02 Aug 2022 15:27:20: 14000000 INFO @ Tue, 02 Aug 2022 15:27:20: 10000000 INFO @ Tue, 02 Aug 2022 15:27:25: 7000000 INFO @ Tue, 02 Aug 2022 15:27:29: 11000000 INFO @ Tue, 02 Aug 2022 15:27:30: 15000000 INFO @ Tue, 02 Aug 2022 15:27:33: 8000000 INFO @ Tue, 02 Aug 2022 15:27:38: 12000000 INFO @ Tue, 02 Aug 2022 15:27:40: 16000000 INFO @ Tue, 02 Aug 2022 15:27:41: 9000000 INFO @ Tue, 02 Aug 2022 15:27:43: #1 tag size is determined as 72 bps INFO @ Tue, 02 Aug 2022 15:27:43: #1 tag size = 72 INFO @ Tue, 02 Aug 2022 15:27:43: #1 total tags in treatment: 7849523 INFO @ Tue, 02 Aug 2022 15:27:43: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:27:43: #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 15:27:44: #1 tags after filtering in treatment: 7679023 INFO @ Tue, 02 Aug 2022 15:27:44: #1 Redundant rate of treatment: 0.02 INFO @ Tue, 02 Aug 2022 15:27:44: #1 finished! INFO @ Tue, 02 Aug 2022 15:27:44: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:27:44: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:27:44: #2 number of paired peaks: 29 WARNING @ Tue, 02 Aug 2022 15:27:44: Too few paired peaks (29) 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 15:27:44: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.05_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/dm3/SRX13453878/SRX13453878.05_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.05_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.05_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 15:27:46: 13000000 INFO @ Tue, 02 Aug 2022 15:27:49: 10000000 INFO @ Tue, 02 Aug 2022 15:27:55: 14000000 INFO @ Tue, 02 Aug 2022 15:27:58: 11000000 INFO @ Tue, 02 Aug 2022 15:28:03: 15000000 INFO @ Tue, 02 Aug 2022 15:28:06: 12000000 INFO @ Tue, 02 Aug 2022 15:28:11: 16000000 INFO @ Tue, 02 Aug 2022 15:28:14: 13000000 INFO @ Tue, 02 Aug 2022 15:28:15: #1 tag size is determined as 72 bps INFO @ Tue, 02 Aug 2022 15:28:15: #1 tag size = 72 INFO @ Tue, 02 Aug 2022 15:28:15: #1 total tags in treatment: 7849523 INFO @ Tue, 02 Aug 2022 15:28:15: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:28:15: #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 15:28:15: #1 tags after filtering in treatment: 7679023 INFO @ Tue, 02 Aug 2022 15:28:15: #1 Redundant rate of treatment: 0.02 INFO @ Tue, 02 Aug 2022 15:28:15: #1 finished! INFO @ Tue, 02 Aug 2022 15:28:15: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:28:15: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:28:15: #2 number of paired peaks: 29 WARNING @ Tue, 02 Aug 2022 15:28:15: Too few paired peaks (29) 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 15:28:15: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.10_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/SRX13453878/SRX13453878.10_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.10_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.10_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling INFO @ Tue, 02 Aug 2022 15:28:21: 14000000 INFO @ Tue, 02 Aug 2022 15:28:29: 15000000 INFO @ Tue, 02 Aug 2022 15:28:36: 16000000 INFO @ Tue, 02 Aug 2022 15:28:39: #1 tag size is determined as 72 bps INFO @ Tue, 02 Aug 2022 15:28:39: #1 tag size = 72 INFO @ Tue, 02 Aug 2022 15:28:39: #1 total tags in treatment: 7849523 INFO @ Tue, 02 Aug 2022 15:28:39: #1 user defined the maximum tags... INFO @ Tue, 02 Aug 2022 15:28:39: #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 15:28:39: #1 tags after filtering in treatment: 7679023 INFO @ Tue, 02 Aug 2022 15:28:39: #1 Redundant rate of treatment: 0.02 INFO @ Tue, 02 Aug 2022 15:28:39: #1 finished! INFO @ Tue, 02 Aug 2022 15:28:39: #2 Build Peak Model... INFO @ Tue, 02 Aug 2022 15:28:39: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 02 Aug 2022 15:28:40: #2 number of paired peaks: 29 WARNING @ Tue, 02 Aug 2022 15:28:40: Too few paired peaks (29) 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 15:28:40: Process for pairing-model is terminated! cut: /home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.20_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/dm3/SRX13453878/SRX13453878.20_model.r’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.20_*.xls’: No such file or directory rm: cannot remove ‘/home/okishinya/chipatlas/results/dm3/SRX13453878/SRX13453878.20_peaks.narrowPeak’: No such file or directory CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。