Segmentation fault (core dumped)

[pedronachtigall]

Hi,

I am trying to run RATTLE on my not data from direct cDNA sequencing, but it is returning the error "Segmentation fault (core dumped)" when I use the fq file (I am using the Full-Length and chopped data). When I use the fasta file (the fq file converted into fasta), I am able to perform the cluster and extract_clusters step only, but the correct step returns the same issue "Segmentation fault (core dumped)". Why is it returning this error? How can we fix that?

Hope to hear from you soon.

Best regards,
Pedro

PS: here comes the head from the fq file:
@52d846b6-b278-4642-aa65-4f0cebafe05a runid=881861c293d589739ee077b6a54280a52c709888 sampleid=SB0247 read=21473 ch=408 start_time=2019-08-14T23:47:21Z strand=-
GAAAGGATATTGCTGGGGCTAGCAGAATCCGGCACATGTGGTCACTTGAAAGCAGAGAAGCCTCTTTTTCTCCTTCCTTGCTTCACTGCAAGGGGTGGCCCTTGAAACACCTTATTTTAACATACGGGCTATAAATACGGCTCAGTGATAGGGACGGACTGAAAGACTGCGGTAGCATCAGGACGCCCGTGGAGCCGGCTAGCCGCTATATAAGTTGGAAAGAATTTGTTGCTCACAGTGCACCTTACCCAGCAATCAAGATGATGCAGATTCATGACTCTTACAGCCAAAAAACATTCTCTTCAATGCAATGGAACTGCTTATTGAGCTGTTAACAACATGGACCAAACGGTGATGGTGCCCAGTCTTCTTCGGGATGTGCCTCTTGCTGGAAGAACTGATTCAGGGGGTGGCTAGAGAAAGGGAGGCCCAGTTGACTCCCAATGGCAGCCTATTGTTCTGCAGAGATATGTAAGGTCACTATACGTTGCTCAAGTCCATTCGCAATGACATTGAATGGGGTGTATTGCAGCAGGCAAATGAGGAAACCACTGGAAGGAAGAAGGATAAGCTGAATGGGAGCTCTGTGCCATGGACATAAGCAGAGGTCCCTGAAGATGAGGTAAGTGGAGGAGGATTTCAGAGAAGCAATTTCATTATCACTTCGAGGGCTTCCTACACTGTGTTTCTAAACTTACCCGCAAGGCCAATGTACTTACCAACCGCTACAAGCAGGAGATTGGAGTCAACAACTGGGGCACTGAATCAGGGAGGGGGAAAGCATGGCCTGCCTGCCTGCCTGCCTGTTTGGGTGAGAAGTAAAAAAAAA
+
"&&"+%%B65;7905:9=<-27>@QKL/4.37$#$&'%0JKGGA((%D(;&&<8=221++,'(/,@q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a7)'")1060+%+,15/83:8;B4.$$""$/&H7;R>=<=4)"+71DE##9=;<78779>6=4?.4('<)&1G31,"$$$/B633+($&amp;/./3;32192;+('7;021.1'%')/401H;7@8I3E.=108E8/5ED&lt;;BCE1B'))5:--1GI25%:8=)1)3&lt;-:4,1;F7&lt;$:HE>JLL03AED>22//.7222%$$.0%%-<2070%1-#@07GN=>QMPONIHGH
@c05e36cb-3652-4466-8796-5f52eab7ec55 runid=881861c293d589739ee077b6a54280a52c709888 sampleid=SB0247 read=10223 ch=191 start_time=2019-08-14T23:47:22Z strand=-
TTCGGCTCAGCATCTGGATGGAGACGCTGCTGCTTTGGCTGCCGCTGCTGCTGCTGGGCCTGCTCGGCCGTATGCGCGCGCGCGCCGTGCAGCTGACCGGAGCCGCCCTGCGGCTGGCCCGCGGGAAGGTGGAGAGCTGTGGAGGATGACGCTTGAACCGCCTGCCAGAGGTAAAGGCCTTCAATGAAGACCTGCCTTGTACCACAACATGGACTTGAAGTACCTGGCTGGAGTGGATCCTGAGCTCATCCTGCTGAACATTAAATTTGAAGAACTTCAGTAATCCCATTGAGTGACATGAGCCGGGAAGAGATAAACCAGCTGATGCAAGAATTGGGATTCTACCGAAAGACGCCAGACTCCCCCTGTTCCCGATGCCTCTAAATGGCGCCTGCAATTCACTGCCATCAGATGTGGAAGCCGCGAAGAACAGACGCGAAAGAGAAAAAGGGGGTGGGGGTCCAGACCTAGAATTCAACAGGCTCTGCTTGTGAAGGGTGCCTAGAAAGAAATGGAAGTGTCAGGGCACAGTACATCTAAATAATCTGCAACTATATAGATACAGTCCTGTGGTTCACACGCTGAATTGCGCTGCTGGAGAAATTACGAGAAGATTCAAAGGCCGCAAACTTGCTTAAGGAAGAACTTGCTGCCTCAGAAGGAAAATGTGTGCAAAACAAAGACAGCTACATATGCAACTCCTTGCCAGTTACAACAGCCCTTGACTTACGACCACAATTGAGACTGGAAAACGTTGTTAAGCATGCGCAGTTGTCACAAGACACCCACATGGCTGTGATTGTGACTTTCCCGCCTGCTTCGCCACTTGCTTTGTGCTTGTCGGAAGCCGGCTGCGGCTGCGGCAACTGTGTGACTTGCACACCAACTGTGGTGAAGGGCAAGCCAACAACCAACAATCACTAACAGCCCTTGTCAAATGGTCGTTAAGGAAGGGCAAAAACGTAACTGATGAAATGACTGAAGAAGTCAAGGGATTCATCCCAAGACCGGTATCCTTGCACAAGGCACCATTAAGGTCCACTCCCATGACCAGCACTTTCCCTCCAGGTGTGCCCCACCTGTGCAGGACAGGATGAAGCCCTCTGCAGAAAGCTTTTGCTGCTGAGGGTGGATAGGACACGTCCTCTCGGGTTGGGAGCAGCCTACTGGGAGCAGGTCGCCAAACCCCAACCGGTTTAGATAGTAACAATAAAGGCTTTGTCAACCAAAAAAAAAAAAA
+
A@3B-C:;3&(3;222&&$24HH<A=,''-?:+31*%$&'(/&""#"#"$"$"#"%).7/++-72@.B$+(9'//30*+/2%&,333,2?957450JHEKHG0,8-?64+,,16<)2'&5EC34(7<5*&6*76%#$.;:@6<:<<:,:=,?*45.--MQ(C@C:64++687;?>3/8=IELENGC,?NK6))=?3';D+@?@2?%$+'')-2':1?--..CBI;:<2G6WPLHIFDD7EED;\MDA++0'$""&%%%389<NG4.1B7=FEIDFB6$D9ANI0>?-EFBGHHDC-9&,9=IN2*.28=>--87G>F:4)AA4;;'-5*<8<(//;@8&&/)'(B>'$.(&A4:B/;FJ;:;('%&/-.4FG;54;.:;D?<2%0517/.66((D7VKEUH@-C2*+FCA>JBPRSTL&IHIKL-5A;5;<>=MF34'$(DAK920&)#'%)$%,$.2+-9;:H@@314*%(/3658A:6+%%&amp;$""#)D/+I@.-%-#%',%+&LPPAN?HFJJBTCDCAE:-8J?C9+/4$8<((2MF9+))""(&)/+=6KSE99@,%%)=MH@;26&"#'3QKQK>?87=777=724@%=.$%((+$#"&%6<DC9+(77,211B%&';AIG7TUUR?31"##%:JF?FXQFFFG+G?%%'#C?62,,%##,$+,-08A;>L04>>7=35B28>F,+@b><MFAA%>=;=KD@H9?=A#HO\PDA:KD2@&$,..'(&5>9;BBF5.959:=:?7851FG0DEBCA98699,604D'%,..<72214'&':4:1FHFH5>==-.464399;;/++7.DB/--().-%%'@a1b@13210->/46801/9D>98B9,,->@ELLV3EJ?8@<34@?.?-.78&432%#.67I:3>69)-,4>-;;;MQJ@<HH/-2,5A,43'%%%&#&%(5'&,7/6;=2-,/2&)64FOMPC431%0722DBFH=L73:A8B<3JJ$$/M=4?5:<<6CAQIHC9<++)#""#1*+.+0/---ICFPJEJFBAG1ACBC;7/22,).0-5%..2CB@C=D8E??KM><;=J;AA>@.&:FEDCNPJGF3+=CG>77778H0BRWEIDA>>-))/;**DJ,:68-19:3<9HB523B679:9?2EJE>6JFA?)/-+5:20/I,%%#+#684;;1D,3/:HPI<<;6--++-),@=24:(%0)GFD=7634:;ABC