ris

6 files changed, 479 insertions, 0 deletions

diff --git a/COPYING b/COPYING
new file mode 100644
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--- /dev/null
+++ b/COPYING
@@ -0,0 +1,202 @@
+
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diff --git a/README.md b/README.md
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index 0000000..2037db4
--- /dev/null
+++ b/README.md
@@ -0,0 +1,3 @@
+# Scheme RIS
+
+Reading citations in the RIS file format to an sexpr.
diff --git a/mcgoron.ris.scm b/mcgoron.ris.scm
new file mode 100644
index 0000000..93e8d85
--- /dev/null
+++ b/mcgoron.ris.scm
@@ -0,0 +1,154 @@
+#| Copyright 2024 Peter McGoron
+ |
+ | Licensed under the Apache License, Version 2.0 (the "License");
+ |
+ | you may not use this file except in compliance with the License.
+ | You may obtain a copy of the License at
+ |
+ |     http://www.apache.org/licenses/LICENSE-2.0
+ |
+ | Unless required by applicable law or agreed to in writing, software
+ | distributed under the License is distributed on an "AS IS" BASIS,
+ | WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+ | See the License for the specific language governing permissions and
+ | limitations under the License.
+ |#
+
+(define-record-type <not-a-stream-error>
+  (not-a-stream-error obj)
+  not-a-stream-error?
+  (obj not-a-stream-error:obj))
+
+(define-record-type <malformed-reference-error>
+  (malformed-reference-error stream)
+  malformed-reference-error?
+  (stream malformed-reference-error:stream))
+
+(define-record-type <stream-error>
+  (stream-error stream)
+  stream-error?
+  (stream stream-error:stream))
+
+;;; Stream destructors.
+
+(define (stream-pair=> stream)
+  (cond-values
+    (when-ct (stream-pair? stream)
+      (values (stream-car stream) (stream-cdr stream)))))
+
+(define (stream-predicate=> stream predicate?)
+  (cond-values
+    (after ((let (stream-pair=> stream) => (head stream))
+            (when (predicate? head)))
+      (values head stream))))
+
+(define-syntax with-stream-predicates
+  (syntax-rules ()
+    ((_ stream ((predicate? name) ...) body ...)
+     (after ((let (stream-predicate=> stream predicate?) => (name stream))
+             ...)
+       body ...))))
+
+;;; Mapping destructors.
+
+(define (mapping-ref=> mapping key)
+  (mapping-ref mapping key (lambda () (values))))
+
+(define (mapping-new-field mapping key val)
+  (mapping-set mapping key (flexvector val)))
+
+;;; Flexvector utils.
+
+(define (flexvector-update-last! fv update)
+  (let ((len (flexvector-length fv)))
+    (flexvector-set! fv
+                     (- len 1)
+                     (update (flexvector-ref fv (- len 1))))))
+
+;;; Parsing each line.
+
+(define (prefix-char? ch)
+  (or (char-upper-case? ch) (char-numeric? ch)))
+
+(define (end=> stream)
+  (cond-values
+    (when-ct (stream-null? stream)
+      stream)
+    (with-stream-predicates stream (((cut eqv? #\return <>) _)
+                                    ((cut eqv? #\newline <>) _))
+      stream)
+    (with-stream-predicates stream (((cut eqv? #\newline <>) _))
+      stream)))
+
+(define (read-rest stream)
+  (let ((fv (flexvector)))
+    (let read-rest ((stream stream))
+      (cond-thunk
+        (after ((let (end=> stream) => (stream)))
+          (values (flexvector->string fv) stream))
+        (after ((let (stream-predicate=> stream char?)
+                  => (x stream)))
+          (flexvector-add-back! fv x)
+          (read-rest stream))
+        (else (raise (stream-error stream)))))))
+
+(define (prefix=> stream)
+  (let ((ws? (lambda (x)
+               (char=? x #\space))))
+    (cond-values
+      (with-stream-predicates stream ((prefix-char? char1)
+                                      (prefix-char? char2)
+                                      (ws? _)
+                                      (ws? _)
+                                      ((cut char=? #\- <>) _)
+                                      (ws? _))
+        (let-values (((rest stream) (read-rest stream)))
+          (values (string char1 char2) rest stream))))))
+
+;;; Parsing of references.
+
+(define (read-reference stream mapping last-name)
+  (cond-thunk
+    (after ((let (prefix=> stream) => (name rest stream)))
+      (cond-thunk
+        (when-ct (equal? name "ER")
+          (values stream mapping))
+        (after ((let (mapping-ref=> mapping name) => (fv)))
+          (flexvector-add-back! fv rest)
+          (read-reference stream mapping name))
+        (else
+         (read-reference stream
+                         (mapping-new-field mapping
+                                            name
+                                            rest)
+                         name))))
+    (when-ct (stream-null? stream)
+      (values stream mapping))
+    (else
+     (let-values
+         (((fv) (mapping-ref mapping
+                           last-name
+                           (lambda () (error "internal error" stream))))
+          ((rest stream) (read-rest stream)))
+       (flexvector-update-last! fv
+                                (lambda (last)
+                                  (string-append last "\n" rest)))
+       (read-reference stream mapping last-name)))))
+
+(define (read-new-reference stream mapping)
+  (cond-thunk
+    (when-ct (stream-null? stream)
+      mapping)
+    (after ((let (prefix=> stream) => (name rest stream))
+            (when (string=? name "TY")))
+      (let-values (((stream mapping)
+                    (read-reference stream
+                                    (mapping-new-field mapping name rest)
+                                    name)))
+        (read-new-reference stream mapping)))
+    (else (raise (malformed-reference-error stream)))))
+
+(define (ris->mapping port)
+  (read-new-reference (port->stream port)
+                      (mapping (make-default-comparator))))
+
diff --git a/mcgoron.ris.sld b/mcgoron.ris.sld
new file mode 100644
index 0000000..22fa6a9
--- /dev/null
+++ b/mcgoron.ris.sld
@@ -0,0 +1,22 @@
+#| Copyright 2024 Peter McGoron
+ |
+ | Licensed under the Apache License, Version 2.0 (the "License");
+ |
+ | you may not use this file except in compliance with the License.
+ | You may obtain a copy of the License at
+ |
+ |     http://www.apache.org/licenses/LICENSE-2.0
+ |
+ | Unless required by applicable law or agreed to in writing, software
+ | distributed under the License is distributed on an "AS IS" BASIS,
+ | WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+ | See the License for the specific language governing permissions and
+ | limitations under the License.
+ |#
+
+(define-library (mcgoron ris)
+  (import (scheme base) (scheme char)
+          (srfi 214) (srfi 128) (srfi 146) (srfi 26) (srfi 41)
+          (mcgoron cond-thunk) (mcgoron cond-thunk values))
+  (export ris->mapping)
+  (include "mcgoron.ris.scm"))
\ No newline at end of file
diff --git a/test/10.1038_s41467-022-34369-4-citation.ris b/test/10.1038_s41467-022-34369-4-citation.ris
new file mode 100644
index 0000000..37ef355
--- /dev/null
+++ b/test/10.1038_s41467-022-34369-4-citation.ris
@@ -0,0 +1,33 @@
+TY  - JOUR
+AU  - Prudkovskiy, Vladimir S.
+AU  - Hu, Yiran
+AU  - Zhang, Kaimin
+AU  - Hu, Yue
+AU  - Ji, Peixuan
+AU  - Nunn, Grant
+AU  - Zhao, Jian
+AU  - Shi, Chenqian
+AU  - Tejeda, Antonio
+AU  - Wander, David
+AU  - De Cecco, Alessandro
+AU  - Winkelmann, Clemens B.
+AU  - Jiang, Yuxuan
+AU  - Zhao, Tianhao
+AU  - Wakabayashi, Katsunori
+AU  - Jiang, Zhigang
+AU  - Ma, Lei
+AU  - Berger, Claire
+AU  - de Heer, Walt A.
+PY  - 2022
+DA  - 2022/12/19
+TI  - An epitaxial graphene platform for zero-energy edge state nanoelectronics
+JO  - Nature Communications
+SP  - 7814
+VL  - 13
+IS  - 1
+AB  - Graphene’s original promise to succeed silicon faltered due to pervasive edge disorder in lithographically patterned deposited graphene and the lack of a new electronics paradigm. Here we demonstrate that the annealed edges in conventionally patterned graphene epitaxially grown on a silicon carbide substrate (epigraphene) are stabilized by the substrate and support a protected edge state. The edge state has a mean free path that is greater than 50 microns, 5000 times greater than the bulk states and involves a theoretically unexpected Majorana-like zero-energy non-degenerate quasiparticle that does not produce a Hall voltage. In seamless integrated structures, the edge state forms a zero-energy one-dimensional ballistic network with essentially dissipationless nodes at ribbon–ribbon junctions. Seamless device structures offer a variety of switching possibilities including quantum coherent devices at low temperatures. This makes epigraphene a technologically viable graphene nanoelectronics platform that has the potential to succeed silicon nanoelectronics.
+SN  - 2041-1723
+UR  - https://doi.org/10.1038/s41467-022-34369-4
+DO  - 10.1038/s41467-022-34369-4
+ID  - Prudkovskiy2022
+ER  - 
diff --git a/test/test.scm b/test/test.scm
new file mode 100644
index 0000000..2b7441a
--- /dev/null
+++ b/test/test.scm
@@ -0,0 +1,65 @@
+#| Copyright 2024 Peter McGoron
+ |
+ | Licensed under the Apache License, Version 2.0 (the "License");
+ |
+ | you may not use this file except in compliance with the License.
+ | You may obtain a copy of the License at
+ |
+ |     http://www.apache.org/licenses/LICENSE-2.0
+ |
+ | Unless required by applicable law or agreed to in writing, software
+ | distributed under the License is distributed on an "AS IS" BASIS,
+ | WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+ | See the License for the specific language governing permissions and
+ | limitations under the License.
+ |#
+
+(import r7rs)
+(load "../mcgoron.ris.sld")
+(import (mcgoron ris) test (srfi 146) (srfi 214))
+
+(define file
+  (call-with-input-file "10.1038_s41467-022-34369-4-citation.ris" ris->mapping))
+
+(test-begin "10.1038_s41467-022-34369-4-citation.ris")
+(define-syntax test-ref
+  (syntax-rules ()
+    ((_ field vals ...)
+     (test field (list vals ...)
+           (flexvector->list (mapping-ref file field))))))
+(test-ref "TY" "JOUR")
+(test-ref "AU"
+          "Prudkovskiy, Vladimir S."
+          "Hu, Yiran"
+          "Zhang, Kaimin"
+          "Hu, Yue"
+          "Ji, Peixuan"
+          "Nunn, Grant"
+          "Zhao, Jian"
+          "Shi, Chenqian"
+          "Tejeda, Antonio"
+          "Wander, David"
+          "De Cecco, Alessandro"
+          "Winkelmann, Clemens B."
+          "Jiang, Yuxuan"
+          "Zhao, Tianhao"
+          "Wakabayashi, Katsunori"
+          "Jiang, Zhigang"
+          "Ma, Lei"
+          "Berger, Claire"
+          "de Heer, Walt A.")
+(test-ref "PY" "2022")
+(test-ref "DA" "2022/12/19")
+(test-ref "TI"
+          "An epitaxial graphene platform for zero-energy edge state nanoelectronics")
+(test-ref "JO" "Nature Communications")
+(test-ref "SP" "7814")
+(test-ref "VL" "13")
+(test-ref "IS" "1")
+(test-ref "AB"
+          "Graphene’s original promise to succeed silicon faltered due to pervasive edge disorder in lithographically patterned deposited graphene and the lack of a new electronics paradigm. Here we demonstrate that the annealed edges in conventionally patterned graphene epitaxially grown on a silicon carbide substrate (epigraphene) are stabilized by the substrate and support a protected edge state. The edge state has a mean free path that is greater than 50 microns, 5000 times greater than the bulk states and involves a theoretically unexpected Majorana-like zero-energy non-degenerate quasiparticle that does not produce a Hall voltage. In seamless integrated structures, the edge state forms a zero-energy one-dimensional ballistic network with essentially dissipationless nodes at ribbon–ribbon junctions. Seamless device structures offer a variety of switching possibilities including quantum coherent devices at low temperatures. This makes epigraphene a technologically viable graphene nanoelectronics platform that has the potential to succeed silicon nanoelectronics.")
+(test-ref "SN" "2041-1723")
+(test-ref "UR" "https://doi.org/10.1038/s41467-022-34369-4")
+(test-ref "DO" "10.1038/s41467-022-34369-4")
+(test-ref "ID" "Prudkovskiy2022")
+(test-end "10.1038_s41467-022-34369-4-citation.ris")