aboutsummaryrefslogtreecommitdiffstats
path: root/extra/checks
diff options
context:
space:
mode:
Diffstat (limited to 'extra/checks')
-rw-r--r--extra/checks/.gitignore2
-rwxr-xr-xextra/checks/check_extid.sh49
-rwxr-xr-xextra/checks/check_hashes.sh16
-rwxr-xr-xextra/checks/check_issnl.sh15
4 files changed, 0 insertions, 82 deletions
diff --git a/extra/checks/.gitignore b/extra/checks/.gitignore
deleted file mode 100644
index 431c3bbc..00000000
--- a/extra/checks/.gitignore
+++ /dev/null
@@ -1,2 +0,0 @@
-*.txt
-*.tsv
diff --git a/extra/checks/check_extid.sh b/extra/checks/check_extid.sh
deleted file mode 100755
index f74f50b6..00000000
--- a/extra/checks/check_extid.sh
+++ /dev/null
@@ -1,49 +0,0 @@
-#!/usr/bin/env bash
-
-set -e -u -o pipefail
-
-export LC_ALL=C
-
-EXTID_FILE=$1
-
-zcat $EXTID_FILE \
- | awk '{print $3 "\t" $1}' \
- | rg -v '^\t' \
- | sort -S 4G \
- > doi_ident.tsv
-zcat $EXTID_FILE \
- | awk '{print $4 "\t" $1}' \
- | rg -v '^\t' \
- | sort -S 4G \
- > pmid_ident.tsv
-zcat $EXTID_FILE \
- | awk '{print $5 "\t" $1}' \
- | rg -v '^\t' \
- | sort -S 4G \
- > pmcid_ident.tsv
-zcat $EXTID_FILE \
- | awk '{print $6 "\t" $1}' \
- | rg -v '^\t' \
- | sort -S 4G \
- > wikidata_ident.tsv
-
-# these identifiers aren't fixed-width, so we need to join (sigh)
-cut -f1 doi_ident.tsv \
- | uniq -d \
- | join -t$'\t' - doi_ident.tsv \
- > doi_ident.dupes.tsv
-cut -f1 pmid_ident.tsv \
- | uniq -d \
- | join -t$'\t' - pmid_ident.tsv \
- > pmid_ident.dupes.tsv
-cut -f1 pmcid_ident.tsv \
- | uniq -d \
- | join -t$'\t' - pmcid_ident.tsv \
- > pmcid_ident.dupes.tsv
-cut -f1 wikidata_ident.tsv \
- | uniq -d \
- | join -t$'\t' - wikidata_ident.tsv \
- > wikidata_ident.dupes.tsv
-
-wc -l doi_ident.dupes.tsv pmid_ident.dupes.tsv pmcid_ident.dupes.tsv wikidata_ident.dupes.tsv >> counts.txt
-
diff --git a/extra/checks/check_hashes.sh b/extra/checks/check_hashes.sh
deleted file mode 100755
index 94102329..00000000
--- a/extra/checks/check_hashes.sh
+++ /dev/null
@@ -1,16 +0,0 @@
-#!/usr/bin/env bash
-
-set -e -u -o pipefail
-
-export LC_ALL=C
-
-HASH_FILE=$1
-
-zcat $HASH_FILE \
- | awk '{print $3 "\t" $1}' \
- | rg -v '^\t' \
- | sort -S 4G \
- | uniq -d -w 40 \
- > sha1_ident.dupes.tsv
-
-wc -l sha1_ident.dupes.tsv >> counts.txt
diff --git a/extra/checks/check_issnl.sh b/extra/checks/check_issnl.sh
deleted file mode 100755
index a28695e7..00000000
--- a/extra/checks/check_issnl.sh
+++ /dev/null
@@ -1,15 +0,0 @@
-#!/usr/bin/env bash
-
-set -e -u -o pipefail
-
-export LC_ALL=C
-
-CONTAINER_DUMP=$1
-
-zcat $CONTAINER_DUMP \
- | jq '[.issnl, .ident] | @tsv' -r \
- | sort -S 4G \
- | uniq -D -w 9 \
- > issnl_ident.dupes.tsv
-
-wc -l issnl_ident.dupes.tsv >> counts.txt