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Missing spaces after periods in species names #20

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peterjc opened this issue Jul 6, 2022 · 0 comments
Open

Missing spaces after periods in species names #20

peterjc opened this issue Jul 6, 2022 · 0 comments

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@peterjc
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peterjc commented Jul 6, 2022

Using release 1, dated 2021-03-01, downloaded as FASTA format:

$ grep -E "(sp|cf|var)\." oomycetedb_whole_2022_07_06_03_05_06.fa  | cut -f 1 -d "|"
>name=Perofascia sp.
>name=Phytophthora alni subsp.alni
>name=Phytophthora alni subsp.alni
>name=Phytophthora alni subsp.alni
>name=Phytophthora alni subsp.alni
>name=Phytophthora alni subsp.multiformis
>name=Phytophthora alni subsp.uniformis
>name=Phytophthora cf.citrophthora
>name=Phytophthora cinnamomi var.robiniae
>name=Phytophthora cinnamomi var.robiniae
>name=Phytophthora sp.acacia
>name=Phytophthora sp.kununurra
>name=Phytophthora sp.paludosa
>name=Phytophthora sp.pecan
>name=Phytophthora sp.persoonii
>name=Phytophthora sp.raspberry
>name=Phytophthora sp.walnut
>name=Pythium ultimum var.sporangiiferum
>name=Salisapilia sp.
>name=Lagenidium sp.pulchrum
>name=Lagenidium sp.sinuatum
>name=Pythium ultimum var.sporangiiferum

It appears that all the spaces are missing where sp., subsp., cf. and var. are followed by another word.

(Cross reference #14 for the spaces needing to be replaced by underscores)

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