Suggest: either gzip, or use .fastq extension

Dear MetONTIIME maintainers,

Thanks for supplying the example file Zymo-GridION-EVEN-BB-SN_sup_pass_filtered_27F_1492Rw_1000_reads.fastq.gz. From the extension alone, one would conclude it is likely a gzipped fastaQ file. However, it actually is an unzipped/plaintext fastaQ file (see proof below).

I'd suggest to rename the file to Zymo-GridION-EVEN-BB-SN_sup_pass_filtered_27F_1492Rw_1000_reads.fastq and then gzip it. In that way, users won't be confused.

I volunteer to do so by Pull Request :-)

Cheers, Richel

Proof it is not a gzip

$ gunzip Zymo-GridION-EVEN-BB-SN_sup_pass_filtered_27F_1492Rw_1000_reads.fastq.gz 
gzip: Zymo-GridION-EVEN-BB-SN_sup_pass_filtered_27F_1492Rw_1000_reads.fastq.gz: not in gzip format

Proof it is plaintext

$ head Zymo-GridION-EVEN-BB-SN_sup_pass_filtered_27F_1492Rw_1000_reads.fastq.gz -n 4
@223c662c-5782-42b6-954a-c281575245e5 runid=7347fc5ebaf2cdc26eec9bf10c73ac20f1cc020d sampleid=EVEN read=11041 ch=495 start_time=2018-10-12T05:37:21Z model_version_id=2021-05-17_dna_r9.4.1_minion_768_2f1c8637
AGAGTTTGATCCTGGCTCAGGATGAACGCTGGCGGCGTGCCTAATACATGCAAGTCGAGCGAACGGACGAGAAGCTTGCTTCTCTGATGTTAGCGGCGGACGGGTGAGTAACACGTGGATAACCTACCTATAAGACTGGGATAACTTCGGGAAACCGGAGCTAATACCGGATAATATTTTTTGAACCGCATGGTTCAAAAGTAAAAGACGGTCTTGCTGTCACTTATAGATGGACCCGCGCTGCATTAGCTAGTTGGTAAGGTAACGGCTTACTAAGGCAACGATGCATAGCCGACCTGAGAGGGTGATCGGCCACACTGGAACTGAGACCTTCCGCGGTCAGACTCCTACGGGAGGCAGCAGTAGGGAATCTTCCGCAATGGGCGAGAAAGCCTGACGGAGCAACGCCGCGTGAGTGATGAAGGTCTTCGGATCGTAAAACTCTGTTATTAGGGAAGAACATATGTGTAAGTAACTGTGCACATCTTGACGGTACCTAATCAGAAAGCCACGGCTAACTACGTGCCAGCAGCCGCGGTAATACGTGAGTGGCAAGCGTTATCCGGAATTATTGGGCGTAAAGCGCGCGTAGGCGGTTTTTTAAGTCTGATGTGAAAGCCCACGGCTCAACCGTGGAGGGTCATTGGAAACTGGAAAACTTGAGTGCAGAAGAGGAAAGTGGAATTCCGTAGGCAGCGGTGAAATGCGCAGAAGATATGGAGGAACACCAGTGGCGAAGGCGACTTTCCTGGTCTGTAACTACGGCGCTGATGTGCGAAAGCGTGGGGATCAAACAGGATTAGATACCCTGGTAGTCCACGCCGTAAACGATGAGTGCTAAGTGTTAAGGGGTTTCCGCCCCTTAGTGCTGCAGCTAACGCATTAAGCACTCCGCCTGGGAGTACGACCGCAAGGTTGAAACTCAAAGGAATTGACGGGGACCCGCACAAGCGGTGGAGCATGTGGTTTAATTCGAAGCAACGCGAAGAACCTTACCAAATCTTGACATCCTTTGACAACTCTAGAGATAGAGCCTTCCCCTTCGGGGACAAAGTGACAGGTGGTGCATGGTTGTCGTCAGCTCGTGTCGTGAGATGTTGGGTTAAGTCCCGCAACGAGCGCAACCCTTAAGCTTAGTTGCCATCATTAAGTTATAGACTCTAAAGTTGTACCGGTGACAAACCGGAGGAAGGTGGGGATGACGTCAAATCATCATGCCCCTTGATTTCGACTACACACGTGCTACAATGGACAATACAAAGGGCAGCGAAACCGCGAGGTCAAGCAAATCCTGGGTCTTTCTCAGTTCGGATTGTAGTCTGCAACTCGACTACATGAAGCTGGAATCGCTAGTAATCGTAGATCAGCATGCTACGGTGAATACGTTCCCGGGTCTTGTACACACCGCCCGTCACACCACGAGAGTTTGTAACACCCGAAGCCGGTGGAGTAACCTTTTAGGAGCTAATGATGAAGGTGGGACAAATGATTGGTGAAGTCGTAACAAGGTAGCCG
+
C765659043-+*++++4;;<EGFFGECB@A@?0///0<@?@@>;:::499999=BBAB@=>>>>>A?<<610/3,++)+56223:>ACBA@11111<<;97,+++3658==?>?CEBE>A98888AA@@CDCAA?@?ABDBCBAA@>FB>:?B@ACBBCACCFDEDHEFD?>755676?91...3++,.4=?ABA@?8(233;?6>965576675568:>??@@ADB@=;93+)))(*+,3689HFAFC=6222<@CECFCCB@CDEDCFCD===ED@CABAAA@BAAABBA=BCD??;74786(6:?@?>?>??>>:;?766223)))&&&%%%&%%&'&&&:=?CD@@>>>@ACABBB@ABC=5527:?CD?5412157D>=33-,-29;B@@BD>?=;<;::<?@?>>?@CCDCDEDG@?>>?BAB;::BCD?<C=99;;;DCA>;;7766,/-.,)*,5=?AA;;<,,,,.533/0/2389<=<=>?>>??>>??@EBA@?@?=?9888:><@;???;;////.333355;<;;>;:8756100011>>876;<=>?>2+'8762688****+25<>@DEA>:<=?655::;;:BB;>B..>???ABBDBCCD<@?==;<=>>B:::99==>@<86789;;3239<2BBC@BA>EBCD@BAA433;952212456:>>9849=++++***)*/359<@?A?=331110015=<B@:9<=2?CC=;>>?>A>:600/00;=>>8)))089?@?:540('$##$$%'')*00@??@??9>ABAA@>?>:336/....5113333:==?@BB@B@@>?>>>@@BCDDDEDC==<>?AAA=;833,'&&*./69(59>@A:A@=667><::;..../=43...//996567:=>>,,+'%(),168=???>>*)+16521368..-0684;9<><66666?@?>??ABDDDCAAA@>>@?@CDECCDDBCCAA>>>??BB@>=;;5--/*)*2>AAABABBAACDC???99:::>=BAAABBBA@;<;542/.///=AA5:A?++++716;<=?@@@>==>>BA@A@@@BCDBB;<A>----.00011:;;?AADEED54444AB@@?E=;<;<=777677@@@BBBE<?<;9:89:=>BB@AB3333236;.**),---.675246(&&&&('((('(///788=C<('49:>211118BB@?>?=?>@988;;998430)*-,-+&%%%%&&.2+)07?@ABCBABEBCBCAB??=?:7<A>;;<99:=@B86766778=B?=99975)'&$$$%)*(()45<=ABCABBBBBDDDDDBCB:::98<<==>>>DGCDCCCCCDJGEFDDFDECFDAB>=:9:433348:955534448?AAAAABDC34435EDFFEBDB??CBDAAACC<;985*))***13:<BBEDC>=;<>>?=@@@?CEBA@BAEF@??@158/--,+(%$$%%&&(225566@?>::99434,(&&(/27988:88898:<=<<=<

MaestSi / MetONTIIME

Suggest: either gzip, or use .fastq extension #94

Proof it is not a gzip

Proof it is plaintext