Job ID = 5720223 sra ファイルのダウンロード中... Read layout: PAIRED fastq に変換中... 2020-04-15T12:39:29 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:39:29 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:39:29 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:39:34 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:39:34 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T12:39:34 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T13:23:09 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T13:28:59 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) 2020-04-15T13:33:04 fasterq-dump.2.9.6 sys: timeout exhausted while reading file within network system module - mbedtls_ssl_read returned -76 ( NET - Reading information from the socket failed ) spots read : 39,367,573 reads read : 78,735,146 reads written : 78,735,146 rm: cannot remove ‘[DSE]RR*’: No such file or directory 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: 01:35:19 39367573 reads; of these: 39367573 (100.00%) were paired; of these: 21966176 (55.80%) aligned concordantly 0 times 14503028 (36.84%) aligned concordantly exactly 1 time 2898369 (7.36%) aligned concordantly >1 times ---- 21966176 pairs aligned concordantly 0 times; of these: 10438994 (47.52%) aligned discordantly 1 time ---- 11527182 pairs aligned 0 times concordantly or discordantly; of these: 23054364 mates make up the pairs; of these: 18675499 (81.01%) aligned 0 times 2172974 (9.43%) aligned exactly 1 time 2205891 (9.57%) aligned >1 times 76.28% overall alignment rate Time searching: 01:35:19 Overall time: 01:35:19 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 7 sequences. [bam_sort_core] merging from 44 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 chrV... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] 3618740 / 26914851 = 0.1345 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/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 16 Apr 2020 00:57:21: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.05 -q 1e-05 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.05 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.bam'] # control file = None # effective genome size = 9.00e+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 @ Thu, 16 Apr 2020 00:57:21: #1 read tag files... INFO @ Thu, 16 Apr 2020 00:57:21: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 00:57:31: 1000000 INFO @ Thu, 16 Apr 2020 00:57:40: 2000000 WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 16 Apr 2020 00:57:50: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.10 -q 1e-10 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.10 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.bam'] # control file = None # effective genome size = 9.00e+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 @ Thu, 16 Apr 2020 00:57:50: #1 read tag files... INFO @ Thu, 16 Apr 2020 00:57:50: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 00:57:51: 3000000 INFO @ Thu, 16 Apr 2020 00:58:02: 1000000 INFO @ Thu, 16 Apr 2020 00:58:02: 4000000 INFO @ Thu, 16 Apr 2020 00:58:15: 2000000 INFO @ Thu, 16 Apr 2020 00:58:15: 5000000 BedGraph に変換中... WARNING: Skipping mount /opt/pkg/singularity/3.5.2/var/singularity/mnt/session/etc/resolv.conf [files]: /etc/resolv.conf doesn't exist in container INFO @ Thu, 16 Apr 2020 00:58:20: # Command line: callpeak -t /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.bam -f BAM -g ce -n /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.20 -q 1e-20 # ARGUMENTS LIST: # name = /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.20 # format = BAM # ChIP-seq file = ['/home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.bam'] # control file = None # effective genome size = 9.00e+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 @ Thu, 16 Apr 2020 00:58:20: #1 read tag files... INFO @ Thu, 16 Apr 2020 00:58:20: #1 read treatment tags... INFO @ Thu, 16 Apr 2020 00:58:28: 6000000 INFO @ Thu, 16 Apr 2020 00:58:28: 3000000 INFO @ Thu, 16 Apr 2020 00:58:33: 1000000 INFO @ Thu, 16 Apr 2020 00:58:40: 7000000 INFO @ Thu, 16 Apr 2020 00:58:41: 4000000 INFO @ Thu, 16 Apr 2020 00:58:46: 2000000 INFO @ Thu, 16 Apr 2020 00:58:55: 8000000 INFO @ Thu, 16 Apr 2020 00:58:55: 5000000 INFO @ Thu, 16 Apr 2020 00:59:00: 3000000 INFO @ Thu, 16 Apr 2020 00:59:09: 9000000 INFO @ Thu, 16 Apr 2020 00:59:09: 6000000 INFO @ Thu, 16 Apr 2020 00:59:14: 4000000 INFO @ Thu, 16 Apr 2020 00:59:22: 10000000 INFO @ Thu, 16 Apr 2020 00:59:23: 7000000 INFO @ Thu, 16 Apr 2020 00:59:27: 5000000 INFO @ Thu, 16 Apr 2020 00:59:35: 8000000 INFO @ Thu, 16 Apr 2020 00:59:36: 11000000 INFO @ Thu, 16 Apr 2020 00:59:40: 6000000 INFO @ Thu, 16 Apr 2020 00:59:47: 9000000 INFO @ Thu, 16 Apr 2020 00:59:50: 12000000 INFO @ Thu, 16 Apr 2020 00:59:52: 7000000 INFO @ Thu, 16 Apr 2020 01:00:00: 10000000 INFO @ Thu, 16 Apr 2020 01:00:04: 13000000 INFO @ Thu, 16 Apr 2020 01:00:06: 8000000 INFO @ Thu, 16 Apr 2020 01:00:13: 11000000 INFO @ Thu, 16 Apr 2020 01:00:19: 14000000 INFO @ Thu, 16 Apr 2020 01:00:20: 9000000 INFO @ Thu, 16 Apr 2020 01:00:26: 12000000 INFO @ Thu, 16 Apr 2020 01:00:31: 15000000 INFO @ Thu, 16 Apr 2020 01:00:32: 10000000 INFO @ Thu, 16 Apr 2020 01:00:39: 13000000 INFO @ Thu, 16 Apr 2020 01:00:44: 16000000 INFO @ Thu, 16 Apr 2020 01:00:45: 11000000 INFO @ Thu, 16 Apr 2020 01:00:52: 14000000 INFO @ Thu, 16 Apr 2020 01:00:58: 17000000 INFO @ Thu, 16 Apr 2020 01:01:00: 12000000 INFO @ Thu, 16 Apr 2020 01:01:07: 15000000 INFO @ Thu, 16 Apr 2020 01:01:12: 18000000 INFO @ Thu, 16 Apr 2020 01:01:14: 13000000 INFO @ Thu, 16 Apr 2020 01:01:20: 16000000 INFO @ Thu, 16 Apr 2020 01:01:26: 19000000 INFO @ Thu, 16 Apr 2020 01:01:27: 14000000 INFO @ Thu, 16 Apr 2020 01:01:34: 17000000 INFO @ Thu, 16 Apr 2020 01:01:41: 20000000 INFO @ Thu, 16 Apr 2020 01:01:41: 15000000 INFO @ Thu, 16 Apr 2020 01:01:48: 18000000 INFO @ Thu, 16 Apr 2020 01:01:54: 21000000 INFO @ Thu, 16 Apr 2020 01:01:56: 16000000 INFO @ Thu, 16 Apr 2020 01:02:02: 19000000 INFO @ Thu, 16 Apr 2020 01:02:06: 22000000 INFO @ Thu, 16 Apr 2020 01:02:08: 17000000 INFO @ Thu, 16 Apr 2020 01:02:14: 20000000 INFO @ Thu, 16 Apr 2020 01:02:18: 23000000 INFO @ Thu, 16 Apr 2020 01:02:21: 18000000 INFO @ Thu, 16 Apr 2020 01:02:27: 21000000 INFO @ Thu, 16 Apr 2020 01:02:31: 24000000 INFO @ Thu, 16 Apr 2020 01:02:35: 19000000 INFO @ Thu, 16 Apr 2020 01:02:40: 22000000 INFO @ Thu, 16 Apr 2020 01:02:44: 25000000 INFO @ Thu, 16 Apr 2020 01:02:47: 20000000 INFO @ Thu, 16 Apr 2020 01:02:51: 23000000 INFO @ Thu, 16 Apr 2020 01:02:57: 26000000 INFO @ Thu, 16 Apr 2020 01:02:59: 21000000 INFO @ Thu, 16 Apr 2020 01:03:04: 24000000 INFO @ Thu, 16 Apr 2020 01:03:10: 27000000 INFO @ Thu, 16 Apr 2020 01:03:12: 22000000 INFO @ Thu, 16 Apr 2020 01:03:17: 25000000 INFO @ Thu, 16 Apr 2020 01:03:22: 28000000 INFO @ Thu, 16 Apr 2020 01:03:24: 23000000 INFO @ Thu, 16 Apr 2020 01:03:30: 26000000 INFO @ Thu, 16 Apr 2020 01:03:35: 29000000 INFO @ Thu, 16 Apr 2020 01:03:36: 24000000 INFO @ Thu, 16 Apr 2020 01:03:44: 27000000 INFO @ Thu, 16 Apr 2020 01:03:49: 30000000 INFO @ Thu, 16 Apr 2020 01:03:51: 25000000 INFO @ Thu, 16 Apr 2020 01:03:56: 28000000 INFO @ Thu, 16 Apr 2020 01:04:02: 31000000 INFO @ Thu, 16 Apr 2020 01:04:05: 26000000 INFO @ Thu, 16 Apr 2020 01:04:10: 29000000 INFO @ Thu, 16 Apr 2020 01:04:16: 32000000 INFO @ Thu, 16 Apr 2020 01:04:18: 27000000 INFO @ Thu, 16 Apr 2020 01:04:24: 30000000 INFO @ Thu, 16 Apr 2020 01:04:30: 33000000 INFO @ Thu, 16 Apr 2020 01:04:31: 28000000 INFO @ Thu, 16 Apr 2020 01:04:37: 31000000 INFO @ Thu, 16 Apr 2020 01:04:45: 34000000 INFO @ Thu, 16 Apr 2020 01:04:45: 29000000 INFO @ Thu, 16 Apr 2020 01:04:51: 32000000 INFO @ Thu, 16 Apr 2020 01:04:57: 30000000 INFO @ Thu, 16 Apr 2020 01:04:57: 35000000 INFO @ Thu, 16 Apr 2020 01:05:04: 33000000 INFO @ Thu, 16 Apr 2020 01:05:10: 31000000 INFO @ Thu, 16 Apr 2020 01:05:10: 36000000 INFO @ Thu, 16 Apr 2020 01:05:18: 34000000 INFO @ Thu, 16 Apr 2020 01:05:23: 32000000 INFO @ Thu, 16 Apr 2020 01:05:24: 37000000 INFO @ Thu, 16 Apr 2020 01:05:31: 35000000 INFO @ Thu, 16 Apr 2020 01:05:36: 33000000 INFO @ Thu, 16 Apr 2020 01:05:38: 38000000 INFO @ Thu, 16 Apr 2020 01:05:46: 36000000 INFO @ Thu, 16 Apr 2020 01:05:52: 34000000 INFO @ Thu, 16 Apr 2020 01:05:53: 39000000 INFO @ Thu, 16 Apr 2020 01:06:01: 37000000 INFO @ Thu, 16 Apr 2020 01:06:07: 35000000 INFO @ Thu, 16 Apr 2020 01:06:08: 40000000 INFO @ Thu, 16 Apr 2020 01:06:16: 38000000 INFO @ Thu, 16 Apr 2020 01:06:21: 36000000 INFO @ Thu, 16 Apr 2020 01:06:23: 41000000 INFO @ Thu, 16 Apr 2020 01:06:32: 39000000 INFO @ Thu, 16 Apr 2020 01:06:37: 37000000 INFO @ Thu, 16 Apr 2020 01:06:39: 42000000 INFO @ Thu, 16 Apr 2020 01:06:46: 40000000 INFO @ Thu, 16 Apr 2020 01:06:51: 38000000 INFO @ Thu, 16 Apr 2020 01:06:53: 43000000 INFO @ Thu, 16 Apr 2020 01:07:00: 41000000 INFO @ Thu, 16 Apr 2020 01:07:04: 39000000 INFO @ Thu, 16 Apr 2020 01:07:07: 44000000 INFO @ Thu, 16 Apr 2020 01:07:14: 42000000 INFO @ Thu, 16 Apr 2020 01:07:19: 40000000 INFO @ Thu, 16 Apr 2020 01:07:21: 45000000 INFO @ Thu, 16 Apr 2020 01:07:28: 43000000 INFO @ Thu, 16 Apr 2020 01:07:32: 41000000 INFO @ Thu, 16 Apr 2020 01:07:35: 46000000 INFO @ Thu, 16 Apr 2020 01:07:41: 44000000 INFO @ Thu, 16 Apr 2020 01:07:46: 42000000 INFO @ Thu, 16 Apr 2020 01:07:48: 47000000 INFO @ Thu, 16 Apr 2020 01:07:54: 45000000 INFO @ Thu, 16 Apr 2020 01:07:59: 43000000 INFO @ Thu, 16 Apr 2020 01:08:01: 48000000 INFO @ Thu, 16 Apr 2020 01:08:06: 46000000 INFO @ Thu, 16 Apr 2020 01:08:11: 44000000 INFO @ Thu, 16 Apr 2020 01:08:13: 49000000 INFO @ Thu, 16 Apr 2020 01:08:19: 47000000 INFO @ Thu, 16 Apr 2020 01:08:24: 45000000 INFO @ Thu, 16 Apr 2020 01:08:25: 50000000 INFO @ Thu, 16 Apr 2020 01:08:31: 48000000 INFO @ Thu, 16 Apr 2020 01:08:37: 46000000 INFO @ Thu, 16 Apr 2020 01:08:37: 51000000 INFO @ Thu, 16 Apr 2020 01:08:44: 49000000 INFO @ Thu, 16 Apr 2020 01:08:50: 47000000 INFO @ Thu, 16 Apr 2020 01:08:50: 52000000 INFO @ Thu, 16 Apr 2020 01:08:57: 50000000 INFO @ Thu, 16 Apr 2020 01:09:01: #1 tag size is determined as 150 bps INFO @ Thu, 16 Apr 2020 01:09:01: #1 tag size = 150 INFO @ Thu, 16 Apr 2020 01:09:01: #1 total tags in treatment: 14858263 INFO @ Thu, 16 Apr 2020 01:09:01: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 01:09:01: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 01:09:02: #1 tags after filtering in treatment: 12714651 INFO @ Thu, 16 Apr 2020 01:09:02: #1 Redundant rate of treatment: 0.14 INFO @ Thu, 16 Apr 2020 01:09:02: #1 finished! INFO @ Thu, 16 Apr 2020 01:09:02: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 01:09:02: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 01:09:03: #2 number of paired peaks: 294 WARNING @ Thu, 16 Apr 2020 01:09:03: Fewer paired peaks (294) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 294 pairs to build model! INFO @ Thu, 16 Apr 2020 01:09:03: start model_add_line... INFO @ Thu, 16 Apr 2020 01:09:03: start X-correlation... INFO @ Thu, 16 Apr 2020 01:09:03: end of X-cor INFO @ Thu, 16 Apr 2020 01:09:03: #2 finished! INFO @ Thu, 16 Apr 2020 01:09:03: #2 predicted fragment length is 205 bps INFO @ Thu, 16 Apr 2020 01:09:03: #2 alternative fragment length(s) may be 205,209 bps INFO @ Thu, 16 Apr 2020 01:09:03: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.05_model.r WARNING @ Thu, 16 Apr 2020 01:09:03: #2 Since the d (205) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 16 Apr 2020 01:09:03: #2 You may need to consider one of the other alternative d(s): 205,209 WARNING @ Thu, 16 Apr 2020 01:09:03: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 16 Apr 2020 01:09:03: #3 Call peaks... INFO @ Thu, 16 Apr 2020 01:09:03: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 16 Apr 2020 01:09:04: 48000000 INFO @ Thu, 16 Apr 2020 01:09:09: 51000000 INFO @ Thu, 16 Apr 2020 01:09:17: 49000000 INFO @ Thu, 16 Apr 2020 01:09:22: 52000000 INFO @ Thu, 16 Apr 2020 01:09:27: #3 Call peaks for each chromosome... INFO @ Thu, 16 Apr 2020 01:09:28: 50000000 INFO @ Thu, 16 Apr 2020 01:09:31: #1 tag size is determined as 150 bps INFO @ Thu, 16 Apr 2020 01:09:31: #1 tag size = 150 INFO @ Thu, 16 Apr 2020 01:09:31: #1 total tags in treatment: 14858263 INFO @ Thu, 16 Apr 2020 01:09:31: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 01:09:31: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 01:09:31: #1 tags after filtering in treatment: 12714651 INFO @ Thu, 16 Apr 2020 01:09:31: #1 Redundant rate of treatment: 0.14 INFO @ Thu, 16 Apr 2020 01:09:31: #1 finished! INFO @ Thu, 16 Apr 2020 01:09:31: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 01:09:31: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 01:09:32: #2 number of paired peaks: 294 WARNING @ Thu, 16 Apr 2020 01:09:32: Fewer paired peaks (294) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 294 pairs to build model! INFO @ Thu, 16 Apr 2020 01:09:32: start model_add_line... INFO @ Thu, 16 Apr 2020 01:09:32: start X-correlation... INFO @ Thu, 16 Apr 2020 01:09:32: end of X-cor INFO @ Thu, 16 Apr 2020 01:09:32: #2 finished! INFO @ Thu, 16 Apr 2020 01:09:32: #2 predicted fragment length is 205 bps INFO @ Thu, 16 Apr 2020 01:09:32: #2 alternative fragment length(s) may be 205,209 bps INFO @ Thu, 16 Apr 2020 01:09:32: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.10_model.r WARNING @ Thu, 16 Apr 2020 01:09:32: #2 Since the d (205) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 16 Apr 2020 01:09:32: #2 You may need to consider one of the other alternative d(s): 205,209 WARNING @ Thu, 16 Apr 2020 01:09:32: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 16 Apr 2020 01:09:32: #3 Call peaks... INFO @ Thu, 16 Apr 2020 01:09:32: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 16 Apr 2020 01:09:38: 51000000 INFO @ Thu, 16 Apr 2020 01:09:41: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.05_peaks.xls INFO @ Thu, 16 Apr 2020 01:09:41: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.05_peaks.narrowPeak INFO @ Thu, 16 Apr 2020 01:09:41: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.05_summits.bed INFO @ Thu, 16 Apr 2020 01:09:41: Done! pass1 - making usageList (7 chroms): 0 millis pass2 - checking and writing primary data (531 records, 4 fields): 2 millis CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 01:09:47: 52000000 INFO @ Thu, 16 Apr 2020 01:09:54: #1 tag size is determined as 150 bps INFO @ Thu, 16 Apr 2020 01:09:54: #1 tag size = 150 INFO @ Thu, 16 Apr 2020 01:09:54: #1 total tags in treatment: 14858263 INFO @ Thu, 16 Apr 2020 01:09:54: #1 user defined the maximum tags... INFO @ Thu, 16 Apr 2020 01:09:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Thu, 16 Apr 2020 01:09:55: #1 tags after filtering in treatment: 12714651 INFO @ Thu, 16 Apr 2020 01:09:55: #1 Redundant rate of treatment: 0.14 INFO @ Thu, 16 Apr 2020 01:09:55: #1 finished! INFO @ Thu, 16 Apr 2020 01:09:55: #2 Build Peak Model... INFO @ Thu, 16 Apr 2020 01:09:55: #2 looking for paired plus/minus strand peaks... INFO @ Thu, 16 Apr 2020 01:09:56: #2 number of paired peaks: 294 WARNING @ Thu, 16 Apr 2020 01:09:56: Fewer paired peaks (294) than 1000! Model may not be build well! Lower your MFOLD parameter may erase this warning. Now I will use 294 pairs to build model! INFO @ Thu, 16 Apr 2020 01:09:56: start model_add_line... INFO @ Thu, 16 Apr 2020 01:09:56: start X-correlation... INFO @ Thu, 16 Apr 2020 01:09:56: end of X-cor INFO @ Thu, 16 Apr 2020 01:09:56: #2 finished! INFO @ Thu, 16 Apr 2020 01:09:56: #2 predicted fragment length is 205 bps INFO @ Thu, 16 Apr 2020 01:09:56: #2 alternative fragment length(s) may be 205,209 bps INFO @ Thu, 16 Apr 2020 01:09:56: #2.2 Generate R script for model : /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.20_model.r WARNING @ Thu, 16 Apr 2020 01:09:56: #2 Since the d (205) calculated from paired-peaks are smaller than 2*tag length, it may be influenced by unknown sequencing problem! WARNING @ Thu, 16 Apr 2020 01:09:56: #2 You may need to consider one of the other alternative d(s): 205,209 WARNING @ Thu, 16 Apr 2020 01:09:56: #2 You can restart the process with --nomodel --extsize XXX with your choice or an arbitrary number. Nontheless, MACS will continute computing. INFO @ Thu, 16 Apr 2020 01:09:56: #3 Call peaks... INFO @ Thu, 16 Apr 2020 01:09:56: #3 Pre-compute pvalue-qvalue table... INFO @ Thu, 16 Apr 2020 01:09:57: #3 Call peaks for each chromosome... INFO @ Thu, 16 Apr 2020 01:10:10: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.10_peaks.xls INFO @ Thu, 16 Apr 2020 01:10:10: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.10_peaks.narrowPeak INFO @ Thu, 16 Apr 2020 01:10:10: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.10_summits.bed INFO @ Thu, 16 Apr 2020 01:10:10: Done! pass1 - making usageList (7 chroms): 1 millis pass2 - checking and writing primary data (359 records, 4 fields): 1 millis CompletedMACS2peakCalling INFO @ Thu, 16 Apr 2020 01:10:20: #3 Call peaks for each chromosome... INFO @ Thu, 16 Apr 2020 01:10:33: #4 Write output xls file... /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.20_peaks.xls INFO @ Thu, 16 Apr 2020 01:10:33: #4 Write peak in narrowPeak format file... /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.20_peaks.narrowPeak INFO @ Thu, 16 Apr 2020 01:10:33: #4 Write summits bed file... /home/okishinya/chipatlas/results/ce10/SRX6619595/SRX6619595.20_summits.bed INFO @ Thu, 16 Apr 2020 01:10:33: Done! pass1 - making usageList (6 chroms): 0 millis pass2 - checking and writing primary data (221 records, 4 fields): 2 millis CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。